In the current beta (Version 2.3.1 (903)), if I have two components in a glyph and I select them all (Cmd-A) with the bounding box showing, and I resize them smaller from a lower corner or edge with the bounding box, they actually get smaller from the top (i.e. they stay on the baseline) rather than raising the bottom.
Can you send a screen recording and the file? It works for me. Are the components auto aligned?