Best 1099 Software for Accountants in 2025: Top Tools Reviewed

Handling 1099 filings manually can be time-consuming, error-prone, and stressful—especially during tax season. Whether you’re a solo CPA, managing a firm, or supporting dozens of clients, choosing the best 1099 software for accountants can significantly improve accuracy, compliance, and productivity.

In this guide, we’ll break down:

What to look for in 1099 software
Key features accountants need
Top-rated 1099 software in 2025
Pricing comparisons
Tips for seamless bulk e-filing

What Is 1099 Software?

1099 software helps tax professionals generate, file, and manage IRS Form 1099s—used to report non-employee income. With the rise of freelancers and gig workers, 1099 filings have become increasingly common and essential for compliance.

The software simplifies:

Data import from spreadsheets or accounting platforms
E-filing with the IRS FIRE system
Printing and mailing copies to recipients
TIN matching and error correction

What to Look for in the Best 1099 Software for Accountants

Feature	Why It Matters
Multi-client management	Handle multiple businesses or EINs from one dashboard
Bulk e-filing capabilities	File hundreds or thousands of 1099s quickly
Integration support	Sync with QuickBooks, Xero, Excel, or payroll tools
TIN verification	Reduces risk of IRS penalties for incorrect info
Secure cloud access	Protect sensitive tax data with encryption and compliance
Affordable per-form pricing	Important for firms filing high volumes
1099-MISC, NEC, and more	Must support the latest IRS form types (MISC, NEC, etc.)

Top 6 Best 1099 Software for Accountants (2025)

Track1099 (by Avalara)

Best For: Accountants and CPAs managing multiple clients
Key Features:

Supports 1099-MISC, 1099-NEC, 1098, W-2, and more
Integrates with QuickBooks, Xero, and Bill.com
Bulk upload via Excel or API
TIN matching and electronic delivery

Pricing: Starts at $2.90/form, with volume discounts

Pros:

Intuitive interface
Excellent for firms with dozens of clients
Email delivery option reduces mailing needs

Tax1099

Best For: Accountants needing IRS-compliant, API-friendly solutions
Key Features:

Real-time TIN matching
E-filing for all major 1099 variants
Cloud-based dashboard
Strong audit trail and reporting

Pricing: Starts at $2.90/form; bulk discounts for 250+ forms

Pros:

Supports e-signature for W-9 collection
Ideal for developers and integrations
Approved IRS e-filing provider

Yearli (by Greatland)

Best For: Accountants looking for robust filing + mailing options
Key Features:

All-in-one: prepares, e-files, prints, and mails
Desktop and online versions available
Handles federal and state compliance
Excellent customer service

Pricing: $4.95/form (Core); $1.25/form (Performance tier with volume)

Pros:

Trusted industry name
Ideal for firms that prefer full-service options
Easy onboarding for new users

eFile4Biz

Best For: Budget-conscious accountants with mid-volume filing needs
Key Features:

No software to download
Cloud-based dashboard
Includes print + mail to recipients
IRS-authorized filing

Pricing: Starts at $3.25/form, discounts for 100+ forms

Pros:

Affordable and simple to use
No minimums
Fast processing

1099 Pro

Best For: Enterprise-level firms and high-volume accountants
Key Features:

Desktop and web-based versions
Built-in TIN checking
Bulk import from ERP and accounting systems
Tracks compliance across multiple clients

Pricing: Custom pricing for enterprise accounts

Pros:

High-performance software for large firms
Highly customizable
Great for tax service providers or payroll bureaus

QuickBooks 1099 E-File Service

Best For: Accountants already using QuickBooks Online
Key Features:

Auto-generates 1099-NEC and 1099-MISC
E-file directly from QuickBooks
Supports contractor W-9 collection
Delivers digital copies to recipients

Pricing: Starts at $15 for 3 forms, then $4/form

Pros:

Seamless for QuickBooks users
Minimal setup
Great for small accounting teams

1099 Software Pricing Comparison (2025)

Software	Starting Price	Best For
Track1099	$2.90/form	Multi-client CPAs
Tax1099	$2.90/form	API integration and compliance
Yearli	$1.25–$4.95/form	Full-service + mailing
eFile4Biz	$3.25/form	Low-cost small batch filing
1099 Pro	Custom quote	Large firms and bulk filers
QuickBooks 1099	$15 for 3 forms	QuickBooks accountants

Tips for Using 1099 Software Efficiently

Collect W-9s early
Get contractor information before year-end to prevent delays.
Verify TINs in advance
Use real-time TIN matching tools to reduce IRS rejections.
Use bulk upload templates
Most providers offer Excel or CSV import templates for fast uploads.
Set up multi-user access
Allow your team to collaborate on filings and approvals.
File early and double-check entries
Avoid last-minute errors and reduce client anxiety.

Conclusion

Selecting the best 1099 software for accountants depends on your volume, client base, and integration needs. For CPAs with multiple clients, Track1099 and Tax1099 are highly scalable. For budget-friendly simplicity, eFile4Biz or Yearli are great choices. QuickBooks users benefit from built-in tools, while large firms may prefer 1099 Pro.

No matter your practice size, cloud-based 1099 solutions make filing faster, more accurate, and fully compliant.