Best Operations - Other Shopify apps in 2026 [Updated]
PickYourApp Review Team
6 min read
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Oct 12, 2025
The Best Shopify operations apps help merchants handle essential backend tasks more efficiently. From managing cash-on-delivery payments and draft orders to automating backups and exports, these tools streamline daily workflows. The collection includes solutions for returns processing, profit analytics, bulk invoice printing, and fraud prevention. Whether you need to track staff time, monitor customer sessions, or generate customs documentation, these specialized apps provide the functionality to run smoother operations and reduce manual work.
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#1. Secure Cash on Delivery orders with WhatsApp OTP. Add fees, set rules, and reduce failed deliveries.
Secure your Cash on Delivery (COD) orders with WhatsApp OTP verification while managing delivery fees effectively. This app helps prevent fake orders by verifying buyer intent through WhatsApp before checkout completion. Set up flexible COD fees as fixed amounts or percentages to cover delivery costs and encourage prepaid payments. Create custom rules to control COD availability based on country, product type, collections, customer groups, or order value. The app supports multiple languages for OTP messages and checkout texts, making it accessible to international customers. Quick setup with detailed tutorials and responsive customer support via WhatsApp, Telegram, or email ensures smooth implementation for your store.Install from Shopify App Store
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#2. The app allows further customization on draft order, and add discount code
Take control of your draft orders with advanced customization options. This Draft Order Helper lets you create checkouts where customers can apply discount codes directly, eliminating manual discount calculations. Add essential details like line item properties and order notes, plus rearrange items without starting over. Prevent overselling by managing inventory levels - deduct stock quantities from draft orders with a single click. The app also helps you recover sales by converting abandoned checkouts into draft orders while maintaining all product properties and customer information. Perfect for merchants who want more flexibility in handling draft orders and need better inventory control during the checkout process. Save time and reduce errors in order management while giving customers a smoother checkout experience with discount code support.Install from Shopify App Store
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#3. Powerful order printer for invoices, packing slips & pick lists. Batch print 100s of orders at once.
Print and manage orders efficiently with this comprehensive bulk order printing solution. Process hundreds of orders simultaneously through an intuitive dashboard designed for high-volume stores. Generate custom invoices, packing slips, and pick lists individually or in batches of up to 500 orders. Keep customers informed with automated PDF invoices, shipping confirmations, and order tracking details. The app lets you tag and filter orders for organized fulfillment while maintaining brand consistency through customizable document templates. Perfect for growing businesses looking to reduce errors and speed up order processing. Includes round-the-clock customer support to help you maximize productivity.Install from Shopify App Store
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#4. Automatic real-time backups. Easy restore, recover & undo for products, themes, full store, & more.
Keep your Shopify store protected with automatic real-time backups of all your important data. Rocket Backups lets you safely store and recover products, collections, media files, blog posts, pages, and themes. When mistakes happen - like accidental edits, deleted photos, or bulk removals - you can quickly restore any item to its previous state with just one click. Every change on your store is automatically backed up as it happens, giving you complete peace of mind. Your backups are securely encrypted and stored on SOC2 compliant servers, ensuring your data stays protected. Compare different versions of your content and restore exactly what you need, when you need it. Perfect for store owners and teams who want reliable protection against accidental changes and data loss while managing their Shopify store.Install from Shopify App Store
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#5. Manage returns, exchanges with the automated return & exchange portal for easy return management.
Simplify your returns and exchanges management with QuickReturns, a complete solution for handling post-purchase operations. The automated return portal lets you process returns, exchanges, store credits, and refunds through a user-friendly interface. Set up custom return policies, automate approval rules, and manage return fees while keeping your inventory updated. The branded return portal includes features like automatic return label generation, multiple return reasons, and customer notifications. Integrate with your warehouse management system and offer flexible refund options to maintain customer satisfaction. With smart return rules and in-store return capabilities, you can effectively manage return windows and non-returnable items while recovering revenue through store credit options.Install from Shopify App Store
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#6. Staff time-tracking app built exclusively for POS retailers.
Track employee work hours seamlessly with this integrated time clock solution for Shopify POS retailers. Your staff members can clock in and out directly through any Shopify POS device, while managers monitor hours and generate detailed reports from their Shopify Admin dashboard. The app works across multiple store locations and requires no complex setup - just install and start tracking immediately. Built specifically for POS businesses, this time-tracking tool eliminates the need for separate login systems or third-party websites. When you need assistance, our live chat support team is ready to help right within the app.Install from Shopify App Store
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#7. Identify fraud and prevent chargebacks.
SEON's advanced fraud prevention system helps protect your online store from fraudulent transactions and chargebacks. Using AI and machine learning, this anti-fraud solution analyzes multiple data points in real-time, including email, phone, IP address, card information, and device data. The platform offers both pre-built eCommerce fraud rules and custom rule creation to match your specific business needs. Connect quickly to start automated fraud screening, with the ability to automatically process legitimate orders while stopping suspicious transactions. Create personalized whitelists and blacklists, and access detailed analytics to make data-driven security decisions. SEON gives you the tools to validate transactions and keep your business safe while focusing on growth.Install from Shopify App Store
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#8. Unlock eCommerce Data That Drives Profit.
Get comprehensive eCommerce analytics and profit insights with Conjura's data platform. This analytics solution centralizes your omnichannel data across Shopify, Amazon, Walmart, eBay and other marketplaces into clear, actionable dashboards. Monitor critical KPIs including CAC, LTV, and ROAS while tracking product performance at the SKU level. The platform features AI-powered reporting and forecasting to help merchandising, finance, operations and marketing teams make data-driven decisions. With one-click setup and integration with popular tools like Brightpearl, Linnworks and Cin7, you can quickly access hundreds of customizable metrics to optimize your sales channels and improve profitability. Let Conjura's expert team guide you in using data analytics to drive sustainable business growth and increased profits across all your eCommerce operations.Install from Shopify App Store
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#9. Automatic daily backups. Browse historical versions of your products and restore them.
Keep your Shopify store's data protected with AppsByB: Backup & Restore. This app creates automatic daily backups of your products, collections, pages, and blogs, maintaining a complete revision history. Browse through previous versions of your product data and images, and easily restore them when needed. Whether you accidentally delete items or want to revert changes, your store's content remains secure and recoverable. Set up automated backups on daily or monthly schedules to ensure your product information is always preserved. With simple restoration options, you can quickly roll back to earlier versions of your products whenever necessary.Install from Shopify App Store
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#10. Commercial invoice generator that helps you quickly clear customs and sell your products overseas.
Generate accurate commercial invoices for international shipping and make customs clearance simple with Customs Buddy. This automated invoice generator ensures all required customs information is included, preventing delays at the border and keeping your customers satisfied. The app automatically creates compliant documentation for your overseas orders, eliminating manual edits and reducing errors. With features like bulk order processing and Shopify Flow integration, you can quickly process multiple shipments while maintaining brand consistency. Save time and money by automating your customs documentation process with precise, customs-ready commercial invoices.Install from Shopify App Store