Here TrueNAS-SCALE-24.10.2 - after June 1st - #18 by kuligs2 and yes it was painfull. Just update to 24.10.2.2. from 24.10.2 and no problems updating apps.
THe warning i guess is for the people using truecharts kubernetes type apps, the move to docker i did earlier this year, so it was painfull for me.