Actually, bootstrap isn't used at all when Y is pressed.Alright, i was going to create a topic and tag @Robz8 but this might do it as well.
i got SudokuHax isntalled and running without any issues, however, im kinda confused on all the bootstrap terms.
SRLoader uses dsiware-bootstrap.nds to boot homebrew when the Y button is pressed.
dsiware-bootstrap.nds is used for retail games, and hb-bootstrap.nds is used for booting homebrew with the A button.i assume it uses release-bootstrap.nds when launching a retail game holding the a button.
release-bootstrap.nds and unofficial-bootstrap.nds are for 3DS.