FPGA bitfiles should not have any dependency on the project name or target name. What if you change the name of your project? What if you change the name of the target? These dependencies should only correspond to the VI and its location in the project tree and FPGA target. FPGA bitfiles should be in the same directory as the vi but with a different extension.
Change the automatic name and path of FPGA bitfiles from:
.\FPGA Bitfiles\ProjectName.lvprog_TargetName_ViName.vi.lvbitx
to
.\ViName.vi.lvbitx
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