7 Best Ecommerce Stock Management Software in 2026

If you have ever woken up at 3 AM worrying about whether you have enough inventory to cover tomorrow's orders, you are not alone. Running an online store means juggling a hundred moving pieces, and keeping track of what is in stock and what is running low can feel like a full-time job on top of your full-time job.

The good news? You do not have to do this alone anymore. Ecommerce stock management software exists specifically to take that weight off your shoulders. These tools handle the counting, tracking, and alerting so you can focus on actually growing your business instead of drowning in spreadsheets.

I looked at seven popular options and compared them across the features that matter most: integration options, real-time syncing, shipping capabilities, ease of use, and overall value. Here is what I found.

Why Stock Management Software Matters for Small Business Owners

When you sell online, especially across multiple platforms like your own website, Amazon, or Etsy, keeping accurate inventory counts is nearly impossible to do manually. One missed update, and suddenly you have sold the same item twice to two different customers. Now you are scrambling to apologize, issue refunds, and figure out how to prevent it from happening again.

Good ecommerce stock management software automatically syncs your inventory across all your sales channels. When something sells on Amazon, your Shopify store updates instantly. When new stock arrives at your warehouse, every platform reflects that change. No more manual data entry. No more overselling nightmares.

Beyond preventing disasters, these tools also help you make smarter decisions. They show you which products are moving fast and which ones are gathering dust. They can predict when you will run out of popular items and remind you to reorder before it is too late.

Quick Comparison: How These 7 Platforms Stack Up

1. Willow Commerce

When comparing raw integration numbers, Willow Commerce offers connections to over 150 channels, shopping carts, and shipping carriers. This includes Amazon, Walmart, Target, eBay, Etsy, TikTok Shop, Wayfair, and Macy's on the marketplace side. For shopping carts, you get Shopify, BigCommerce, WooCommerce, and Magento. Shipping integrations cover FedEx, UPS, DHL, USPS, and Amazon Shipping.

What separates Willow Commerce from most competitors is that inventory, shipping, and warehouse management all live in one system. Most other platforms handle inventory tracking, but require you to add separate tools for shipping optimization or warehouse operations. With Willow Commerce, when an order comes in, the system can automatically select the best carrier rate and route the order to the optimal warehouse location.

The shipping component deserves attention because it directly affects your margins. The platform compares rates across carriers in real time and can reduce shipping costs by up to 10% according to their published data. For businesses shipping hundreds of orders monthly, that adds up.

Real-time syncing works across all connected channels, meaning inventory updates happen instantly rather than on scheduled intervals. This matters most during high-volume periods when hourly syncs can lead to overselling.

Integrations: 150+ channels, carts, and carriers

Shipping: Built-in with rate optimization

Warehouse tools: Yes, including multi-location routing

Pricing: $499 for up to 2,000 orders 

2. Zoho Inventory

Zoho Inventory integrates with over 40 platforms, including Amazon, eBay, Etsy, and Shopify. The platform handles inventory tracking with batch and serial numbers and includes automated reorder notifications.

The most significant advantage here is price. Zoho offers a free plan for businesses processing up to 20 orders per month. Paid plans start around $59 per month. For startups watching every dollar, this accessibility matters.

The trade-off shows up in depth. Zoho does not include shipping optimization, and warehouse management features are limited compared to Willow Commerce or Cin7. Multi-channel syncing works, but updates can lag behind platforms with true real-time capabilities.

Integrations: 40+ platforms

Shipping: Basic label printing, no rate optimization

Warehouse tools: Limited

Pricing: Free tier available, paid starts at $59/month

3. Fishbowl

Fishbowl integrates with roughly 50 platforms and has strong integrations with QuickBooks and Amazon. The platform handles manufacturing workflows well, including bills of materials and work orders, which most inventory tools skip entirely.

For businesses that assemble products or manage raw materials alongside finished goods, Fishbowl offers functionality that others do not emphasize. Multi-warehouse support is solid.

The gap appears in shipping. Fishbowl does not include built-in shipping tools so you will need a separate solution for carrier management and rate shopping. The learning curve is also steeper than simpler options, and the interface feels dated compared to newer platforms.

Integrations: 50+ platforms, strong QuickBooks connection

Shipping: Not included

Warehouse tools: Yes, plus manufacturing features

Pricing: Starts around $329/month

4. Sortly

Sortly takes a different approach with a mobile-first design focused on simplicity. The platform connects to around 10 integrations, far fewer than competitors, but offers an intuitive experience for basic inventory tracking.

You can scan barcodes, take photos of products, and update stock from your phone. The system works offline and syncs when you reconnect. For minimal operations or businesses just starting to organize their inventory, this simplicity has real value.

The limitations become clear as you grow. Sortly lacks multi-channel syncing, shipping features, and the analytics that larger sellers need. It handles inventory tracking but not the broader operational needs that platforms like Willow Commerce or Cin7 address.

Integrations: 10+ basic connections

Shipping: Not included

Warehouse tools: No

Pricing: Starts at $49/month

5. Cin7

Cin7 connects to over 80 platforms and offers a comprehensive feature set, including point-of-sale, warehouse management, and third-party logistics coordination. For larger operations with complex requirements, Cin7 handles scenarios that simpler tools cannot.

The platform includes shipping functionality. Reporting and analytics run deep, giving visibility into inventory performance across locations and channels.

The drawback is complexity and cost. Cin7 requires significant setup time, and the pricing reflects its enterprise positioning. Smaller businesses may find themselves paying for capabilities they do not need yet.

Integrations: 80+ platforms

Shipping: Yes, included

Warehouse tools: Yes, comprehensive

Pricing: Starts around $349/month

6. Webgility

Webgility focuses specifically on connecting ecommerce platforms to QuickBooks. It automatically syncs inventory, sales, and financial data, reducing manual bookkeeping and accounting errors.

With around 30 integrations, the platform covers major marketplaces and shopping carts. The QuickBooks connection is tighter than what most competitors offer, making it valuable for businesses where accounting accuracy is the primary concern.

The narrow focus means Webgility does not compete on shipping, warehouse management, or operational features. It solves the accounting integration problem well, but it requires additional tools to address broader inventory and fulfillment needs.

Integrations: 30+ platforms, deep QuickBooks focus

Shipping: Not included

Warehouse tools: No

Pricing: Starts at $139/month

7. inFlow Inventory

inFlow offers straightforward inventory tracking with both desktop and cloud options. The platform integrates with around 20 services and covers stock tracking, invoicing, and basic order management.

Barcode scanning through the mobile app speeds up inventory counts, and the B2B showroom feature lets wholesale customers place orders directly. For small retailers and wholesalers, inFlow provides practical functionality without complexity.

The platform includes basic shipping label printing but lacks the rate comparison and optimization found in Willow Commerce or Cin7. Multi-channel syncing is limited, and the feature set does not scale well for growing businesses.

Integrations: 20+ platforms

Shipping: Basic label printing

Warehouse tools: Limited

Pricing: Starts at $110/month

Practical Tips for Getting Started

Choosing the right ecommerce stock management software is just the first step. Here are some things you can do right away to get more value from whatever tool you pick.

Start with an honest assessment of your current inventory. Before you migrate to any new system, take time to do a thorough count of what you actually have. Garbage in, garbage out applies here. If your starting data is messy, your new software will just organize that mess more efficiently.

Set up low stock alerts immediately. Most tools let you define minimum stock levels for each product. Take the time to think through what those numbers should be based on how quickly items sell and how long it takes to restock.