I can't follow your steps to reproduce there seems to be missing steps. I presume you built from nightly tarball to get a 1.39, unfortunately that doesn't say what the git was when you built it as it does for built from git (see below), 1.39 is still in development so things can change at any point.

I ran Geany:

(null): Geany INFO		: Geany 1.39 (git >= b7558417), en_AU.UTF-8
(null): Geany INFO		: GTK 3.24.20, GLib 2.64.6
(null): Geany INFO		: OS: Linux Mint 20 (ulyana)

on a separate config ie geany -c /tmp/something and did:

start Geany, starts with the default size, not maximised
maximise geany, close and reopen, sidebar has same width
change sidebar width, close and reopen, sidebar retains new width
unmaximise geany, size and position is defined by the WM I suspect since Geany has no record of the pre-maximise values, but sidebar is the same width in pixels not percent.
close and reopen, sidebar retains the same width

AFAIK thats the expected behaviour. If yours behaves differently can you post the values of the treeview_position and geometry from /tmp/something/session.conf

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