A few questions:
- Are you using the same system for both versions of Wireshark?
- Are you using the same settings (try creating a new empty profile in both versions and see if the discrepancies go away)?
- Are you seeing this with a particular pcap file only, or with many (all) of your files?
If that does not help, could you try to extract a few tcp sessions that exhibit the discrepancies into a new pcap file and share it so we can take a look at the issue?
