MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.
If I got you right, you have assembled the printer, endstops are installed on the machine, you have uploaded firmware modified for ToyREP (with altered accelerations and movement speeds), measured the Vref voltage on drivers and you are still not able to move the printer?
Now, when you measure the endstops, are they normally open or normally closed? And do they change their state when pressed?
Marlin on default is set to use NC - normally closed switches. If yours are normally open, you will either have to resolder the wires to so the give normally closed signal or change in configuratuon.h the lines referring to ENDSTOP_INVERTING to true.
define X_MIN_ENDSTOP_INVERTING true
define Y_MIN_ENDSTOP_INVERTING true
define Z_MIN_ENDSTOP_INVERTING true
define X_MAX_ENDSTOP_INVERTING true
define Y_MAX_ENDSTOP_INVERTING true
define Z_MAX_ENDSTOP_INVERTING true
Than you should be able to home each axis and after homing move in the axis freely up to the point where you will hit maximal or minimal distance set for each axis.