Other PDF Issues

How to Fix Highlight Boxes Around Text in PDFs on iPad

Maira MehtabMaira Mehtab Nov 3, 2026 869 views

Question details

The user is experiencing an issue where text highlighted in a PDF appears correctly in Adobe Acrobat but displays unwanted small boxes or messy highlighted areas when opened via the iPad Files app or other viewers.

How to Fix Highlight Boxes Around Text in PDFs on iPad
Product
PDF
Device & OS
iPadOS / Desktop
Scenario
Viewing a previously annotated PDF document on an iPad using the native Files app or a third-party PDF reader.
Observed behavior
Highlight annotations render incorrectly, showing up as small boxes or distorted highlighted areas instead of clean text highlights.
Before you start

Ensure you have access to a desktop computer with your PDF editor installed, as the specific commenting preference adjustments needed to fix this metadata issue cannot be made directly from the iPad mobile app.

Solution 1Recommended

Modify Commenting Preferences in Adobe Acrobat Desktop

Disable the setting that copies selected text into comment pop-ups to prevent cross-platform rendering glitches in standard PDF viewers.

Different PDF viewers utilize varying rendering engines to interpret annotation data. The Apple Files app and other lightweight viewers often struggle with the complex comment pop-up metadata attached to highlights by desktop PDF editors, resulting in distorted boxes.

1
Open PDF Editor on Desktop

Launch your Adobe Acrobat desktop application on your Windows or Mac computer and open the affected PDF document.

2
Navigate to Preferences

Click on the 'Edit' menu at the top of the window and select 'Preferences' from the dropdown list. You can also use the keyboard shortcut Ctrl+K (Windows) or Cmd+K (Mac).

3
Adjust Commenting Settings

In the Preferences window, select 'Commenting' from the left-hand category pane. Locate the checkbox labeled 'Copy selected text into Highlight, Strikethrough, Underline and Replace Text comment pop-ups' and clear it.

4
Save and Restart

Click 'OK' to apply the changes. Restart the application, re-apply your highlights if necessary, and then transfer the PDF back to your iPad to check the display in the Files app.

Modify Commenting Preferences in Adobe Acrobat Desktop
Retroactive Fix: For existing highlights that are already corrupted, you may need to delete the old highlights and re-highlight the text after changing this setting for the fix to take effect.
Reliable PDF Editor

Use WPS PDF for Seamless Annotation on iPad and Desktop

Avoid messy annotations and rendering bugs by using WPS Office. Its built-in PDF reader and editor provide standard, highly compatible highlight tools that display perfectly across all devices and native file managers without generating unwanted boxes.

  1. 1. Install WPS Office: Download and install WPS Office from the App Store on your iPad or from the official website on your desktop.
  2. 2. Open Your PDF: Launch WPS Office, navigate to your files, and open the PDF document you wish to read or edit.
  3. 3. Highlight Text Smoothly: Tap on the 'Annotation' or 'Edit' tab, select the 'Highlight' tool, and drag across your text. WPS PDF ensures clean metadata attachment.
  4. 4. Save and Share: Save your document. The annotations will render flawlessly in any standard viewer, including iOS native apps, without cross-platform display issues.
Highly compatible with standard PDF viewers and the Apple Files appClean, box-free text highlighting and markup toolsSeamlessly sync PDFs between your iPad, PC, and MacFully compatible with Microsoft Office formats (Word, Excel, PowerPoint) and standard PDFs
microsoft office alternative - wps office

Frequently Asked Questions

Why do PDF highlights look different in the Apple Files app compared to other apps?

Different PDF viewers use unique rendering engines to interpret annotation data. The Apple Files app sometimes struggles to accurately render the extra comment pop-up metadata attached to highlights by advanced editors, which causes the highlights to look like weird boxes.

Can I fix the PDF highlight box issue directly on my iPad?

Usually, the setting causing this metadata issue (copying text into pop-ups) must be disabled in the desktop version of the PDF editor. Once the setting is changed and the file is saved on desktop, you can view it correctly on your iPad.

How do I remove the existing corrupted highlight boxes from my PDF?

You will need to open the document in your desktop PDF editor, delete the problematic highlights, adjust the commenting preferences to disable text-to-popup copying, and then re-highlight the text before saving.