Ok, here's a special version of the mod that you can use to repair affected replays: https://i.johni0702.de/replaymod-1.8.9-2.0.0-b6-25-ged56673*.jar
To do so, simply start Minecraft with the special version, go into the replay viewer, select the affected replay and press "Load".
Instead of normally loading the replay, the mod will now try to repair that replay. If it succeeds, a fixed copy of the replay should appear.
Once you've repaired all affected replays, switch back from the special version to the normal version and load the fixed replay as normal.
After you've verified that no data was lost, you may then delete the original broken replays and rename the fixed ones to their original names.