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.
Couple of things
Assuming you bed level before each print . Make sure the bed level command is the last thing before printing ! If for example you use a G28 ( home all axis) its resets the bed level data.
SO your start gcode should be something like
M107 : make sure the part cooling fan is off
G28 : home all axis
G29 : perform mesh bed leveling
You also need to research and understand Z offset. Its the amount below Z zero that's used when printing This is what you adjust to set your first layer height/ bed adhesion