After performing an upgrade to IM v10, from a previous release, users and developers alike must be aware that records will not automatically sort in the same order they appear in the file, thus making visual comparisons between source files and GP a bit more difficult.
To overcome this issue, open the Microsoft.Dynamics.GP.IntegrationManager.ini file found under your Integration Manager installation folder and change the UseOptimizedFiltering value to False.
This issues has been documented under KB article 924857.
Mariano Gomez, MIS, MCP, PMP
Maximum Global Business, LLC