After upgrading the nRF-Command-Line-Tools from 9.8.1 to 10.12.1 the RTT output of JLinkRTTClient stopped working when doing a nrfjprog --reset.
Interestingly it still works when I use the old (9.8.1) version of nrfjprog: RTT output keeps running.
When I reset with nrfjprog from the new (10.12.1) version the RTT output is stuck until I restart JLinkExe