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This is likely related to issue #710. I've dug into this a bit and found some issues in the code concerning selecting/displaying diff hunks. There is currently a hard-coded limit of 4 items in DiffView::fetchMore(int fetchWidgets = 4); which sometimes prevents the loaded diff hunks from reaching the bottom of the window, which prevents scrolling updates from loading more diff hunks...
I'm looking into a way to refactor some of this code to make it simpler and more reliable in a way that should solve the issue you're experiencing...
If I show the diff with gittyup, not all changes/diffs are displayed.
When I open TortoiseMerge, all changes are displayed.
Gittyup:
marked and below are not shown.
I update gittyup to current develop and tortoisemerge to current version.
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