Found the fix for this on the apps forum:
It's an issue with the adapter searching for the protocol when the vehicle is starting the ECUs up and checking comms (should not cause any permanent issues as an ignition reset should clear them)
Go into the vehicle profile, then select the advanced settings and in the protocol selection, choose "Automatic – Fast" as the protocol selection (this will scan for protocols in a different mode that will cause the issue to not happen anymore, though it may work on older vehicles (pre 2004))
Has worked for me since, connects in faster too.