diff --git a/files.php b/files.php
index da619d1..f935f26 100644
--- a/files.php
+++ b/files.php
@@ -122,7 +122,7 @@ function fileManager_dir($directory, $return_link, $first_call=true) {
 						}
 						$fileManager .= "<li class=\"pft-file " . strtolower($ext) . "\"><a nohref onMouseOver=\"top.ICEcoder.overFileFolder('file','$link')\" onMouseOut=\"top.ICEcoder.overFileFolder('file','')\" style=\"position: relative; left:-22px; cursor: pointer\">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span id=\"".str_replace("/","|",str_replace($docRoot,"",$link))."\">" . htmlspecialchars($this_file) . "</span> ".$fileAtts."</a></li>";
 					} else {
-						$fileAtts = "<img src=\"images/padlock.png\" style=\"cursor: pointer\" onClick=\"alert('Sorry, you need higher admin level rights to view.')\">";
+						$fileAtts = "<img src=\"images/padlock.png\" style=\"cursor: pointer\" onClick=\"top.ICEcoder.message('Sorry, you need higher admin level rights to view.')\">";
 						$fileManager .= "<li class=\"pft-file " . strtolower($ext) . "\" style=\"cursor: default\"><span style=\"position: relative; left:-22px; color: #888\">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; [HIDDEN] ".$fileAtts."</span></li>";
 					}
 				}
diff --git a/index.php b/index.php
index 13faab4..9ca8048 100644
--- a/index.php
+++ b/index.php
@@ -15,12 +15,12 @@ if ($checkUpdates) {
 	$ICEcoderLatestVer = json_encode(file_get_contents("http://icecoder.net/latest-version.txt"));
 	$ICEcoderLatestVer = rtrim(ltrim($ICEcoderLatestVer,"\""),"\"\\n");
 	if (ltrim($versionNo,"v ")<ltrim($ICEcoderLatestVer,"v ")) {
-		echo '<script>alert(\'ICEcoder '.$ICEcoderLatestVer.' now released\n\nPlease upgrade\');</script>';
+		echo '<script>top.ICEcoder.message(\'ICEcoder '.$ICEcoderLatestVer.' now released\n\nPlease upgrade\');</script>';
 	} else {
 		$cMLatestVer = json_encode(file_get_contents("http://codemirror.net/latest-version.txt"));
 		$cMLatestVer = rtrim(ltrim($cMLatestVer,"\""),"\"\\n");
 		if ($cMThisVer<$cMLatestVer) {
-			echo '<script>alert(\'Code Mirror '.$cMLatestVer.' now released\n\nPlease upgrade\');</script>';
+			echo '<script>top.ICEcoder.message(\'Code Mirror '.$cMLatestVer.' now released\n\nPlease upgrade\');</script>';
 		}
 	}
 }
diff --git a/lib/coder.js b/lib/coder.js
index b272bac..3183250 100644
--- a/lib/coder.js
+++ b/lib/coder.js
@@ -550,7 +550,7 @@ var ICEcoder = {
 		cM = ICEcoder.getcMInstance();
 		okToRemove = true;
 		if (ICEcoder.changedContent[closeTabNum-1]==1) {
-			okToRemove = confirm('You have made changes.\n\nAre you sure you want to close without saving?');
+			okToRemove = top.ICEcoder.ask('You have made changes.\n\nAre you sure you want to close without saving?');
 		}
 
 		if (okToRemove) {
@@ -743,7 +743,7 @@ var ICEcoder = {
 		var newFolder, shortURL;
 
 		shortURL = top.ICEcoder.rightClickedFile.substr((top.ICEcoder.rightClickedFile.indexOf(shortURLStarts)+top.shortURLStarts.length),top.ICEcoder.rightClickedFile.length).replace(/\|/g,"/");
-		newFolder = prompt('Enter New Folder Name at '+shortURL+'/','');
+		newFolder = top.ICEcoder.getInput('Enter New Folder Name at '+shortURL+'/','');
 		if (newFolder) {
 			newFolder = shortURL + "/" + newFolder;
 			top.ICEcoder.serverQueue("add","lib/file-control.php?action=newFolder&file="+newFolder.replace(/\//g,"|"));
@@ -780,7 +780,7 @@ var ICEcoder = {
 				}
 			} else {
 			// show a message because we have 10 files open
-				alert('Sorry, you can only have 10 files open at a time!');
+				top.ICEcoder.message('Sorry, you can only have 10 files open at a time!');
 				canOpenFile = false;
 			}
 
@@ -815,7 +815,7 @@ var ICEcoder = {
 		var renamedFile, shortURL;
 
 		shortURL = top.ICEcoder.rightClickedFile.substr((top.ICEcoder.rightClickedFile.indexOf(shortURLStarts)+top.shortURLStarts.length),top.ICEcoder.rightClickedFile.length).replace(/\|/g,"/");
-		renamedFile = prompt('Please enter the new name for',shortURL);
+		renamedFile = top.ICEcoder.getInput('Please enter the new name for',shortURL);
 		if (renamedFile) {
 			for (var i=0;i<top.ICEcoder.openFiles.length;i++) {
 				if(top.ICEcoder.openFiles[i]==shortURL.replace(/\|/g,"/")) {
@@ -836,7 +836,7 @@ var ICEcoder = {
 	deleteFile: function() {
 		var delFiles, selectedFilesList;
 
-		delFiles = confirm('Delete:\n\n'+top.ICEcoder.selectedFiles.toString().replace(/\|/g,"/").replace(/,/g,"\n")+'?');
+		delFiles = top.ICEcoder.ask('Delete:\n\n'+top.ICEcoder.selectedFiles.toString().replace(/\|/g,"/").replace(/,/g,"\n")+'?');
 		// Upon supply a new name, rename tabs and update filename on server
 		if (delFiles) {
 			selectedFilesList = "";
@@ -1485,7 +1485,7 @@ var ICEcoder = {
 					top.document.getElementById('accountLogin').style.top = "-50px";
 					setTimeout(function() {top.document.getElementById('accountLoginContainer').style.display = "none";},300);
 				} else {
-					alert('Sorry, that\'s not correct.');
+					top.ICEcoder.message('Sorry, that\'s not correct.');
 				}
 			}
 		}
@@ -1657,4 +1657,19 @@ var ICEcoder = {
 		top.ICEcoder.serverQueue("add","lib/file-control.php?action=perms&file="+file+"&perms="+perms);
 		top.ICEcoder.serverMessage('<b>chMod '+perms+' on </b><br>'+file);
 	},
+
+	// Show a message
+	message: function(msg) {
+		alert(msg);
+	},
+
+	// Ask for confirmation
+	ask: function(question) {
+		return confirm(question);
+	},
+
+	// Get the users input
+	getInput: function(question,defaultValue) {
+		return prompt(question,defaultValue);
+	}
 };
\ No newline at end of file
diff --git a/lib/file-control.php b/lib/file-control.php
index 0372d0c..6805907 100644
--- a/lib/file-control.php
+++ b/lib/file-control.php
@@ -35,7 +35,7 @@ if ($_GET['action']=="load") {
 			echo '<textarea name="loadedFile" id="loadedFile">'.str_replace("</textarea>","<ICEcoder:/:textarea>",$loadedFile).'</textarea>';
 		} else {
 			echo '<script>fileType="nothing";</script>';
-			echo '<script>alert(\'Sorry, you need a higher admin level to view this file\');</script>';
+			echo '<script>top.ICEcoder.message(\'Sorry, you need a higher admin level to view this file\');</script>';
 		}
 	};
 
@@ -55,9 +55,9 @@ if ($_GET['action']=="newFolder") {
 		echo '<script>top.ICEcoder.selectedFiles=[];top.ICEcoder.updateFileManagerList(\'add\',\''.$fileLoc.'\',\''.$fileName.'\');top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="newFolder";</script>';
 	} else {
 		if (!is_writable($docRoot.$file)) {
-			echo "<script>alert('Sorry, cannot create folder at\\n".substr($file,0,strrpos($file,"/"))."');</script>";
+			echo "<script>top.ICEcoder.message('Sorry, cannot create folder at\\n".substr($file,0,strrpos($file,"/"))."');</script>";
 		} else {
-			echo '<script>alert(\'Sorry, you need to be logged in to add folders\');</script>';
+			echo '<script>top.ICEcoder.message(\'Sorry, you need to be logged in to add folders\');</script>';
 		}
 		echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 	}
@@ -74,9 +74,9 @@ if ($_GET['action']=="rename") {
 		echo '<script>top.ICEcoder.selectedFiles=[];top.ICEcoder.updateFileManagerList(\'rename\',\''.$fileLoc.'\',\''.$fileName.'\');top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="rename";</script>';
 	} else {
 		if (!is_writable($_GET['oldFileName'])) {
-			echo "<script>alert('Sorry, cannot rename\\n".strClean($_GET['oldFileName'])."');</script>";
+			echo "<script>top.ICEcoder.message('Sorry, cannot rename\\n".strClean($_GET['oldFileName'])."');</script>";
 		} else {
-			echo '<script>alert(\'Sorry, you need to be logged in to rename\');</script>';
+			echo '<script>top.ICEcoder.message(\'Sorry, you need to be logged in to rename\');</script>';
 		}
 		echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 	}
@@ -93,9 +93,9 @@ if ($_GET['action']=="perms") {
 		echo '<script>top.ICEcoder.selectedFiles=[];top.ICEcoder.updateFileManagerList(\'chmod\',\''.$fileLoc.'\',\''.$fileName.'\',\''.numClean($_GET['perms']).'\');top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="perms";</script>';
 	} else {
 		if (!is_writable($docRoot.$file)) {
-			echo "<script>alert('Sorry, cannot change permissions on \\n".strClean($docRoot.$file)."');</script>";
+			echo "<script>top.ICEcoder.message('Sorry, cannot change permissions on \\n".strClean($docRoot.$file)."');</script>";
 		} else {
-			echo '<script>alert(\'Sorry, you need to be logged in to change permissions\');</script>';
+			echo '<script>top.ICEcoder.message(\'Sorry, you need to be logged in to change permissions\');</script>';
 		}
 		echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 	}
@@ -118,15 +118,15 @@ if ($_GET['action']=="delete") {
 				if ($fileLoc=="") {$fileLoc = "/";};
 				echo '<script>top.ICEcoder.selectedFiles=[];top.ICEcoder.updateFileManagerList(\'delete\',\''.$fileLoc.'\',\''.$fileName.'\');top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="delete";</script>';
 			} else {
-				echo "<script>alert('Sorry can\\'t delete\\n".$filesArray[$i]."');</script>";
+				echo "<script>top.ICEcoder.message('Sorry can\\'t delete\\n".$filesArray[$i]."');</script>";
 			}
 			echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 		}
 	} else {
 		if (!is_writable($docRoot.$filesArray[$i])) {
-			echo "<script>alert('Sorry, cannot delete\\n".$docRoot.$filesArray[$i]."');</script>";
+			echo "<script>top.ICEcoder.message('Sorry, cannot delete\\n".$docRoot.$filesArray[$i]."');</script>";
 		} else {
-			echo '<script>alert(\'Sorry, you need to be logged in to delete\');</script>';
+			echo '<script>top.ICEcoder.message(\'Sorry, you need to be logged in to delete\');</script>';
 		}
 		echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 	}
@@ -181,7 +181,7 @@ if ($_GET['action']=="save") {
 					echo '<textarea name="userVersionFile" id="userVersionFile"></textarea>';
 					?>
 					<script>
-					var refreshFile = confirm('Sorry, this file has changed, cannot save\n<?php echo $file;?>\n\nReload this file and copy your version to a new document?');
+					var refreshFile = top.ICEcoder.ask('Sorry, this file has changed, cannot save\n<?php echo $file;?>\n\nReload this file and copy your version to a new document?');
 					if (refreshFile) {
 						var cM = top.ICEcoder.getcMInstance();
 						var thisTab = top.ICEcoder.selectedTab;
@@ -204,14 +204,14 @@ if ($_GET['action']=="save") {
 					echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 				}
         		} else {
-				echo "<script>alert('Sorry, cannot write\\n".$file."');</script>";
+				echo "<script>top.ICEcoder.message('Sorry, cannot write\\n".$file."');</script>";
 				echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 			}
 		} else {
 			if (!is_writable($saveFile)) {
-				echo "<script>alert('Sorry, cannot write\\n".$file."');</script>";
+				echo "<script>top.ICEcoder.message('Sorry, cannot write\\n".$file."');</script>";
 			} else {
-				echo '<script>alert(\'Sorry, you need to be logged in to save\');</script>';
+				echo '<script>top.ICEcoder.message(\'Sorry, you need to be logged in to save\');</script>';
 			}
 			echo '<script>top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);action="nothing";</script>';
 		}
@@ -269,12 +269,12 @@ if (action=="save") {
 	?>
 		if (top.ICEcoder.rightClickedFile) {
 			shortURL = top.ICEcoder.rightClickedFile.substr((top.ICEcoder.rightClickedFile.indexOf(top.shortURLStarts)+top.shortURLStarts.length),top.ICEcoder.rightClickedFile.length).replace(/\|/g,"/")+"/";
-			newFileName = prompt('Enter Filename',shortURL);
+			newFileName = top.ICEcoder.getInput('Enter Filename',shortURL);
 		} else {
-			newFileName = prompt('Enter Filename','/');
+			newFileName = top.ICEcoder.getInput('Enter Filename','/');
 		}
 		if (newFileName && top.document.getElementById('filesFrame').contentWindow.document.getElementById(newFileName.replace(/\//g,"|"))) {
-			overwriteOK = confirm('That file exists already, overwrite?');
+			overwriteOK = top.ICEcoder.ask('That file exists already, overwrite?');
 		}
 		document.saveFile.newFileName.value = newFileName;
 	<?php ;};?>
diff --git a/lib/multiple-results.php b/lib/multiple-results.php
index ac7642d..2b2505b 100644
--- a/lib/multiple-results.php
+++ b/lib/multiple-results.php
@@ -41,7 +41,7 @@ if (startTab!=top.ICEcoder.selectedTab) {
 }
 foundTabArray.length==0 ? showHide = "hide" : showHide = "show";
 top.ICEcoder.showHide(showHide,top.document.getElementById('blackMask'));
-if (foundTabArray.length==0) {alert('No matches found')};
+if (foundTabArray.length==0) {top.ICEcoder.message('No matches found')};
 <?php if (isset($_GET['replace'])) { ?>
 if (foundTabArray.length!=0) {document.getElementById('replaceAll').style.opacity = 1};
 <?php ;}; ?>
diff --git a/lib/settings-screen.php b/lib/settings-screen.php
index ec58bbc..cb1ef18 100644
--- a/lib/settings-screen.php
+++ b/lib/settings-screen.php
@@ -192,16 +192,16 @@ var showHideTabs = function() {
 var validatePasswords = function() {
 	<?php if($_SESSION['userLevel']==10) { ?>
 	if (document.settings.accountPassword.value != 0 && document.settings.accountPassword.value.length<8) {
-		alert('Please use at least 8 chars in the password');
+		top.ICEcoder.message('Please use at least 8 chars in the password');
 	} else {
 		if (document.settings.accountPassword.value != document.settings.confirmPassword.value) {
-			alert('Sorry, your passwords don\'t match')
+			top.ICEcoder.message('Sorry, your passwords don\'t match')
 		} else {
 			document.settings.submit();
 		}
 	}
 	<?php } else { ?>
-		alert('Sorry, you need to be logged in to change settings');
+		top.ICEcoder.message('Sorry, you need to be logged in to change settings');
 	<?php ;}; ?>
 }
 </script>
diff --git a/plugins/zip-it/index.php b/plugins/zip-it/index.php
index a3fd8bd..c4eecba 100644
--- a/plugins/zip-it/index.php
+++ b/plugins/zip-it/index.php
@@ -64,7 +64,7 @@ if($_SESSION['userLevel']==10) {
 	echo '<script>top.ICEcoder.serverMessage("<b>Zipping Files</b>");</script>';
 	$zipItAddToZip = $zipItDoZip->zipFilesUp($zipItSaveLocation.$zipItFileName);
 	if (!$zipItAddToZip) {
-		echo '<script>alert("Could not zip files up!");</script>';
+		echo '<script>top.ICEcoder.message("Could not zip files up!");</script>';
 	} else {
 		echo '<script>setTimeout(function(){top.ICEcoder.serverMessage();top.ICEcoder.serverQueue("del",0);},500);</script>';
 	}