Last updated on:
February 14, 2025

How to markup & annotate a PDF: A complete guide

How to mark up and annotate a PDF

When working with sensitive documents, knowing how to markup a PDF properly is crucial. While markup tools let you highlight and draw on PDFs, and PDF annotations allow adding comments without changing the content, only proper redaction completely removes confidential information from your files.

Each year, organizations face significant penalties due to improper document handling. Learning how to mark on a PDF securely isn't just about adding comments – it's about ensuring sensitive data stays protected. That's why understanding how to annotate a PDF correctly can mean the difference between secure collaboration and data exposure.

This guide shows you:

  • Why common PDF markup methods could be exposing your sensitive data
  • How to annotate PDFs while maintaining security and compliance
  • Advanced techniques that cut document processing time by 98%
  • When markup tools aren't enough and true redaction becomes critical
  • The hidden risks in standard PDF tools that could compromise your data

Let's explore how to handle your sensitive documents securely and efficiently.

Quick comparison of markup, annotation, and redaction tools


Feature category Basic PDF tools (Preview, Edge) General annotation software Professional redaction software
Core function Basic markup (highlights, shapes) Comments and annotations AI-powered permanent redaction
Data security Visual covering only, no data removal Visual covering only, no data removal Complete visible data and metadata removal
Compliance No compliance features Basic annotation logs Full compliance, audit-proof trails
Automation Manual only Basic templates OCR, AI-powered data recognition
Collaboration Local files only Basic sharing Team roles, collaborative workflows, external reviewers
Hidden data protection None None Metadata and invisible data removal
Processing speed Manual (hours) Semi-automated 98% faster than manual methods

Understanding the difference between markup, annotation, and redaction tools is crucial for secure document handling. While basic tools offer simple highlighting and commenting features, they leave sensitive data vulnerable. Professional redaction software provides the only guaranteed way to permanently remove confidential information.

Let's examine three essential document workflows and the appropriate tools for each:

  1. Document markup: When you need to highlight text or draw attention to specific sections without adding context. Basic PDF tools work for non-sensitive content, but lack security features for confidential data.
  2. PDF annotations: For adding comments, feedback, and collaborative notes. While annotation software enables team review processes, it doesn't address data protection needs.
  3. Secure redaction: Required for documents containing sensitive information that must be completely removed. AI-powered solutions like Redactable automate this process, ensuring permanent data removal while cutting processing time by 98%.

Let's explore each workflow in detail.

1. How to mark up PDF documents effectively

Learning how to mark up PDF files properly can significantly streamline document workflows while protecting sensitive information. When you need to annotate PDFs for review or collaboration, it's crucial to understand which tools match your security requirements.

Basic markup vs professional tools

While many professionals know how to mark on a PDF using basic tools like Preview or Edge, these methods pose several risks:

  • Visual markups can be reversed or removed
  • Hidden data remains in the document
  • No audit trail for compliance
  • Limited collaboration capabilities

How to use the markup tools in Adobe Acrobat

To annotate a PDF securely, organizations need tools that address these vulnerabilities. Professional solutions provide:

  • Permanent changes that can't be reversed
  • Complete metadata removal
  • Detailed audit logs
  • Real-time collaboration features

2. How to annotate PDF documents

When working with sensitive documents, follow these essential guidelines:

  • Establish clear conventions: Use consistent colors and symbols for different types of markups across your team.
  • Maintain security: Never use basic markup tools for sensitive information - proper redaction is required for confidential data.
  • Track changes: Implement version control and maintain audit trails for all document modifications.

By choosing the right annotation tools and following these practices, teams can significantly improve their document handling efficiency while maintaining security. For sensitive information, remember that markup and annotation features should complement, not replace, proper redaction processes.

When it comes to markup tools, professionals typically rely on several established solutions, each with distinct capabilities:

Industry standards:

  • Adobe Acrobat: The most widely-used tool for basic PDF markup and annotation, though it lacks advanced security features
  • Wondershare PDFelement: Offers a balance of functionality and ease of use

Collaboration-focused:

  • MarkupHero: Specializes in real-time proofing across devices
  • GoProof: Popular for creative teams needing extensive markup options

However, most of these tools share common limitations:

  • No permanent data removal
  • Limited security features
  • Basic collaboration capabilities
  • No automated processing

For organizations handling sensitive information, these limitations make standard markup tools insufficient for complete document security. While they work for basic annotation needs, proper redaction requires specialized solutions that guarantee data removal and compliance.

Understanding PDF annotations and best practices

PDF annotations serve a distinct purpose from markup and redaction - they add context and enable collaboration without altering the original document. Whether you need to annotate PDFs for team review or client feedback, choosing the right approach is crucial for efficiency and security.

Best practices:

Document preparation:

  • Establish consistent annotation conventions across teams
  • Create clear guidelines for different annotation types
  • Ensure proper version control before starting

Quality control:

  • Implement review processes for annotated documents
  • Maintain annotation consistency across similar documents
  • Document all annotation decisions for future reference

Annotation tools selection and limitations

Common tools:

  • brat: Free browser-based collaboration, but limited security features
  • doccano: Modern interface with basic annotation capabilities
  • Xodo: Multi-platform support with standard features

However, standard annotation tools have significant limitations:

  • No permanent data removal capabilities
  • Limited audit trail functionality
  • Basic security features
  • Potential metadata exposure risks

Security considerations:

When annotating sensitive documents, organizations must recognize that annotation tools don't provide:

  • Complete data removal
  • Compliance certification
  • Metadata protection
  • Guaranteed privacy

While markup tools help highlight content and annotations enable collaboration, organizations often discover these methods fall dangerously short when handling sensitive information. The black rectangle over confidential text in your PDF might be hiding a costly secret. While it appears to conceal information, the data often remains embedded in the document, accessible to anyone who knows where to look. This common misconception about PDF redaction has led to numerous data breaches, with organizations learning too late that their sensitive information was never truly removed.

3. Secure redaction: Beyond markup and annotation

Think of using PDF editors for redaction is like painting over graffiti – the original marks remain underneath. True redaction, by contrast, completely removes the sensitive content, leaving no trace behind. This distinction isn't just technical – it's the difference between data security and data vulnerability.

The real cost of improper redaction

In 2023, a major healthcare provider faced millions in HIPAA violations after confidential patient data was recovered from "redacted" documents. The black boxes they'd placed over sensitive information gave false security – the data remained in the file's metadata, accessible to anyone with basic PDF software.

Modern solutions for complete protection

Today's AI-powered redaction software transforms this risky process into a secure, automated workflow. Instead of manually drawing boxes and hoping for the best, organizations can now:

  • Automatically detect and remove sensitive data patterns
  • Permanently eliminate hidden metadata and embedded content
  • Generate certified proof of redaction for compliance
  • Collaborate securely through encrypted cloud platforms

For healthcare providers, legal firms, and government agencies, this shift to professional redaction tools isn't just about efficiency – it's about guaranteeing data privacy in an increasingly regulated environment.

Beyond just efficiency, modern organizations need a complete redaction solution that guarantees permanent data removal while streamlining workflows. This is where Redactable transforms document security.

What Redactable brings to the table

Built for today's privacy demands, Redactable combines AI-powered automation with enterprise-grade security. The platform removes sensitive information 98% faster than manual methods while ensuring complete compliance through:

  • HIPAA-compliant data handling with FIPS 140-2 validated encryption
  • SOC 2 Type 2 certified infrastructure and operations
  • US-based data storage with AWS multi-zone redundancy
  • Monthly vulnerability scanning and continuous security monitoring

For teams handling sensitive documents, Redactable eliminates risky email sharing through secure cloud collaboration. Direct integrations with Box, Google Drive, Dropbox, and OneDrive make it seamless to protect documents where they live.

Ready to transform your document security? Try Redactable for free today and experience the difference of true enterprise-grade redaction. For organizations with complex needs, our team offers personalized demos to show how Redactable can integrate with your specific workflows.

Interested in learning more?

Go beyond markup and annotation with the #1 redaction software today!

Ready to get started?

Try Redactable for free and find out why we're the gold standard for redaction
Try for free
Secure icon, green background and white checkmark

No credit card required

Secure icon, green background and white checkmark

Start redacting for free

Secure icon, green background and white checkmark

Cancel any time

Cookie Consent

By clicking “Accept”, you agree to the storing of cookies on your device to enhance site navigation, analyze site usage, and assist in our marketing efforts.

View our Privacy Policy for more information.