Versa probe Z height after automatic tool length measure

Hello
I use QtDragon with versa probe to automatically measure tool height. I am following the documentation here (linuxcnc.org/docs/devel/html/gui/qtdragon.html#_versa_probe) to setup various config params like probe height, etc. I have a gcode program generated with Fusion360 where Z zero is set to top of the work piece. Before running the program, I set the block height to work piece height (measured manually). When program is started, it correctly go to the tool height sensor location and probes the length of the tool ans new value for Z is set. However this Z value does not seem to become zero at the top of the stock height (Which is how I setup the codinate system in Fusion). If I stop the program, the G54 Z changes and the new value seem to be correctly alighned with Z of zero at top of the stock. I am new to this proebe system and would like to understand the reasoning.

Thanks
S

What version of linuxcnc are you using?

I have built it directly from source with no custom modifications. The last git commit is as follows:

commit ec2dc5fe7d1b55bb43c5f96b1e2f31e3d61d2fa8 (HEAD -> master, origin/master, origin/HEAD)
Merge: 8eea44d784 84f5e89ad1
Author: Greg <26096779+snowgoer540@users.noreply.github.com>
Date: Sat Mar 25 06:54:38 2023 -0400

Could you supply a small sample program for testing?
I've never actually used auto tool probe but i could try testing on my little mill.

Sorry cmorley, I was away from home so could not reply. I have attached a simple g-code program where this issue became visible.