Yes, you are right! I just saw it. Once you leave the Pattern Editor it ends up with quirk to reuse automatic pattern creation. But I found a workaround.
Open the Pattern Lib to start your work.
Klick on the component of interest left in the Patterns list.
Select silkcreen drawing
CTRL+X (will temporarily cut the silkscreen drawing)
Select the editfield with Number of Pads then CTRL+C and CTRL+V (pads get out of center = BUG)
CTRL+ALT+C (this will recenter the pads)
Left mouse button click in drawing area
CTRL+V (will paste old silkscreen drawing)
use cursor keys the shift silkscreen drawing to correct position (hope your grid fits
)
CTRL+S (save all work)
Now you can make any further components in Pattern Properties without mess.
Alter you leave the Pattern Editor and have a new start next time first repeat the workaround procedure
(only if you would like to expand existing Patterns using the generator)
And hope of Alex and his Software team that they will soon fix the bug.