ERP Software for E-Commerce
E-commerce businesses face a unique combination of challenges: high order volumes, multi-channel selling across Shopify, Amazon, and marketplaces, complex returns management, and the need for real-time inventory accuracy to prevent overselling. As brands scale from startup to mid-market, they inevitably outgrow standalone Shopify apps and spreadsheets, requiring a purpose-fit ERP that automates fulfilment, delivers multi-channel financial visibility, and supports the speed of digital commerce.
Compare ERP Systems for E-Commerce
Select up to 4 ERP vendors to compare side by side. Filtered to show systems with strong e-commerce capabilities.
Key Challenges for E-Commerce
Preventing overselling and stockouts when inventory is split across multiple warehouses and fulfilment channels
Automating order routing and 3PL communication at high order volumes without manual intervention
Reconciling revenue and fees across Shopify, Amazon, eBay, and direct channels in a single P&L
Managing a high volume of returns and refunds with accurate inventory reintegration and financial posting
Maintaining accurate landed cost accounting across international supplier shipments
Scaling fulfilment operations without linear headcount growth during peak trading periods
Integrating with a growing stack of marketing, CRM, and logistics tools without data silos
Best E-Commerce ERP for SMBs
Recommended for companies with $10M–$250M revenue and 10–200 employees.
Brightpearl
mid-rangeRetail-native platform designed for e-commerce with automated order management, multi-channel inventory, and deep Shopify, Amazon, and BigCommerce integrations.
Best for: DTC brands and multi-channel sellers processing 500–5,000 orders/month
Cin7 Core
budgetInventory-first cloud platform with native integrations to 700+ channels, 3PL connectivity, and B2B portal for wholesale alongside DTC.
Best for: Product businesses selling across DTC, wholesale, and marketplace simultaneously
NetSuite ERP
mid-rangeFull-suite cloud ERP with SuiteCommerce, native Shopify connectors, multi-subsidiary financials, and robust order management for scaling e-commerce brands.
Best for: E-commerce brands approaching $5M+ revenue and outgrowing Shopify apps
DEAR Systems (Cin7 Omni)
budgetCloud inventory and order management platform with strong manufacturing and e-commerce hybrid capabilities and a competitive price point.
Best for: Brands that manufacture and sell direct-to-consumer
Acumatica
mid-rangeCommerce Edition covers e-commerce, inventory, and financials with consumption-based pricing that suits high-volume, fast-growing brands.
Best for: Mid-size e-commerce businesses seeking unlimited-user ERP
Unleashed Software
budgetCloud inventory management with strong purchasing, costing, and Shopify integration focused on product businesses with complex inventory needs.
Best for: E-commerce businesses with manufactured or assembled products
Best E-Commerce ERP for Enterprise
Recommended for companies with $250M+ revenue and complex multi-site operations.
SAP S/4HANA
enterpriseEnterprise-grade ERP with full omnichannel commerce capabilities, global financial consolidation, and advanced demand planning for large-scale digital retailers.
Best for: Enterprise e-commerce operations and large omnichannel retailers
Oracle ERP Cloud
enterpriseComprehensive cloud ERP with strong order management, global financials, and supply chain capabilities suited to enterprise DTC and marketplace operations.
Best for: Large-scale e-commerce and retail enterprises with complex ERP needs
Microsoft Dynamics 365 Commerce
enterpriseEnd-to-end platform covering e-commerce storefront, order management, warehousing, and back-office ERP with AI-driven recommendations.
Best for: Enterprise retailers and brands standardising on the Microsoft stack
Infor CloudSuite Fashion
enterpriseIndustry-specific ERP for fashion and apparel e-commerce brands with built-in PLM, seasonal planning, and omnichannel fulfilment capabilities.
Best for: Fashion, apparel, and lifestyle brand e-commerce operations
Essential ERP Capabilities for E-Commerce
Real-time, unified inventory pool across all sales channels and warehouse locations
Automated order routing to 3PL, internal warehouse, or drop-ship suppliers based on rules
Native integrations with Shopify, Amazon Seller Central, eBay, BigCommerce, and WooCommerce
Multi-channel revenue reconciliation with platform fee deductions and settlement tracking
Returns and reverse logistics management with automated inventory reintegration
Landed cost calculation and allocation across international purchase orders
Demand forecasting and reorder point management to prevent stockouts
Customer lifetime value and repeat purchase analysis linked to ERP order data
Kitting, bundling, and virtual product management for DTC subscription and gift sets
3PL and fulfilment centre integration with real-time pick, pack, and ship status
E-Commerce ERP Cost Ranges
SMB
$12,000 – $60,000
3–15 users
Implementation: $10,000 – $50,000
Mid-Market
$50,000 – $250,000
15–80 users
Implementation: $60,000 – $300,000
Enterprise
$200,000 – $1,500,000+
80+ users
Implementation: $300,000 – $3,000,000+
Implementation Considerations
Shopify and marketplace data migration — including historical orders, products, and customers — must be carefully mapped before cutover to avoid SKU duplication and inventory discrepancies.
3PL integration is often the highest-risk technical component; validate EDI or API connectivity with fulfilment partners early and run parallel operations before cutting over.
Multi-currency and international tax (VAT, GST) configuration requires specialist input and should be validated with a tax advisor before go-live in cross-border markets.
Inventory costing method selection (FIFO, AVCO, or standard cost) has significant P&L implications and should be agreed with the finance team and auditors before system setup.
Plan for a peak-season freeze window — avoid major ERP changes during Black Friday, Cyber Monday, or holiday periods to protect fulfilment continuity.
Frequently Asked Questions
When should an e-commerce brand move from Shopify apps to a proper ERP?
Most DTC brands feel the pain of outgrowing Shopify apps between $2M and $10M in annual revenue, or when they begin selling on multiple channels simultaneously. The trigger points are typically: inventory accuracy breaking down, finance team spending hours reconciling spreadsheets, and 3PL communication requiring manual intervention. At that stage, a purpose-built ERP or inventory management platform like Brightpearl, Cin7, or NetSuite typically delivers ROI within 12 months.
Can ERP prevent overselling on Amazon and Shopify simultaneously?
Yes. ERP platforms with a unified inventory pool push real-time available-to-promise quantities to each channel after every order, receipt, and reservation. This means when an Amazon order claims 5 units, the Shopify availability updates within seconds. Brightpearl, NetSuite, and Cin7 all offer this capability with sub-minute sync frequencies for high-volume sellers.
How does ERP handle Amazon FBA inventory separately from my own warehouse?
ERP systems track FBA inventory as a distinct location within the overall inventory record, allowing you to see units at Amazon fulfilment centres separately from your own 3PL or in-house warehouse. Purchase order receipts can be directed to FBA or internal locations, and reorder logic can be set independently for each fulfilment method based on sales velocity and lead times.
What is the best ERP for a Shopify brand scaling from $5M to $50M?
NetSuite ERP and Brightpearl are the two most commonly deployed platforms for Shopify brands in the $5M–50M revenue band. NetSuite offers the most complete accounting, multi-subsidiary, and international capabilities for brands with complex financial needs. Brightpearl is faster to implement and better suited to operationally focused teams that prioritise order automation and multi-channel inventory over deep financial modules.
How does an ERP manage subscription box or recurring order models?
ERP systems handle subscriptions by generating recurring sales orders at defined intervals, reserving inventory in advance, triggering pick lists to the warehouse or 3PL, and posting revenue in line with fulfilment. Subscription-specific modules or integrations (e.g., with Recharge, Skio, or Bold Subscriptions) feed order data into the ERP, where financial recognition, COGS, and fulfilment are managed centrally.
Can ERP calculate the true landed cost of imported products automatically?
Yes. Landed cost modules in ERP platforms like NetSuite, Acumatica, and Brightpearl allocate freight, customs duties, insurance, and agent fees to the unit cost of each SKU on a purchase order, using allocation methods such as weight, volume, or value. This gives an accurate COGS figure that reflects the true cost of getting inventory to your warehouse rather than just the supplier invoice price.
How do e-commerce brands manage returns and reverse logistics in ERP?
ERP supports returns through return merchandise authorisation (RMA) workflows that capture the return reason, condition, and disposition (resell, quarantine, destroy) for each returned unit. Inventory is automatically reintegrated or written off based on condition, and the financial posting — refund, replacement, or credit — is handled in the same workflow, eliminating manual journal entries.
Does implementing ERP disrupt live e-commerce operations?
With careful planning, disruption can be minimised to a brief cutover window. Best practice is to run parallel operations for 2–4 weeks before cutover, use a staged go-live starting with back-office functions before connecting live channel integrations, and schedule the final cutover during the lowest-volume trading window of the week. Most Shopify integrations can be switched over in under an hour.
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