with v1.9 there are now 2 keymaps possible on any one application. the one you are use to... and a region based keymap.

the region based keymap stays with the region when you pip swap your windows. this allows for formations to work properly even after pip swapping

to set the region based keymap, in the maximizer... at the bottom, there is a field for keymap. when you have the region selected, hit that button and select your keymap

don't try to mix your keymaps with the region ones. they are separate and you will see the two keymaps listed in the list (pic above shows 'keymap(r2.)' ... you normal keymap would be loaded to the right of the '.'