preserve runtime changes not working, not possible to upload runtime changes?

Hello everyone, I am redeploying a lot of automation objects that have had changes to a couple of boolean attributes made during runtime. I dont want to loose these changes. As they now have undeployed changes i can not use the option of upload runtime changes. Normally i use "preserve runtime changes", but it seems that this option does not work in this case, the initial values still get deployed and i loose the changes. I have around 200 instances left to deploy. and hope that i can somehow find a way to preserve the changes. Is there maybe a way to upload the runtime values even though the instances have undeployed changes. (these are just some minor undeployed changes that i dont mind loosing anyway)

thank you