Remember that the Amiga reads mouse input from joystick port 0, not joystick port 1, so you'll want to use the joy_0 actions like I said, not joy_1 actions:
Code:
keyboard_key_f1 = action_joy_0_fire_button
keyboard_key_f2 = action_joy_0_2nd_button
(the fact that in your setup, player one uses the joystick in joystick port 1, is irrelevant. The emulated Amiga still reads mouse input from Amiga joystick port 0...)