soft limit error after x homing, does not home y

it does not change, it still homes in the same direction. only flipping the positive and negative in the table length changes the direction.

If the homing direct does not change, then it's likely the you did not
change the correct ini constant (or perhaps there is another error in
the ini file homing constants or perhaps home switch operation)

I don't think you can eliminate the soft limits issue unless you get the
MIN_LIMIT and MAX_LIMIT setup properly (MIN_LIMIT < MAX_LIMIT)

It may also be the you have the hardware directions reversed, this you can
fix by inverting the direction pin or changing the sign of the joint SCALE
ini constant. (say 4000 to -4000)

Where would I need to go to change the scale

#*** AXIS_X *******************************
[AXIS_X]
MAX_VELOCITY = 0.5
MAX_ACCELERATION = 0.2
MIN_LIMIT = 4.8
MAX_LIMIT = -4.8

[JOINT_0]
TYPE = LINEAR
HOME = 0.0
MIN_LIMIT = 4.8
MAX_LIMIT = -4.8
MAX_VELOCITY = 0.5
MAX_ACCELERATION = 0.2
STEPGEN_MAXACCEL = 0.25
SCALE = 4000.0
FERROR = 0.05
MIN_FERROR = 0.01
HOME_OFFSET = -4.500000
HOME_SEARCH_VEL = 0.100000
HOME_LATCH_VEL = -0.100000
HOME_IGNORE_LIMITS = YES
HOME_SEQUENCE = 1
#******************************************

What file is this located in?

the one with .ini at the end.
Use a text editor to edit it, not the office suite.