Well if you want the Best of both worlds ?
Then leave the settings as below & make your choices.
As you are about to do Battle make a save.
then open the RDB file & Just remove the // from the 240 Res & save the file.
Now load your game & play with the right in Game Res.
& god how i Hate POKEMON
[2952369C-B6E4C3A8-C:50]
Good Name=Pokemon Stadium 2 (E) [!]
Internal Name=POKEMON STADIUM 2
RDRAM Size=4
Counter Factor=2
Save Type=First Save Type
CPU Type=Recompiler
Self-modifying code Method=Protected Memory
Use TLB=Yes
Linking=Global
Reg Cache=Yes
Use Large Buffer=No
\\Resolution Height=240
Resolution Height=480
Status=Compatible
Plugin Note=(/alpha) (Res Hieght) Remove \\ For right Res In Game