Use a .PIF with the .BAT file. In the program information file, specify 'run minimised'.
Add the following lines to your batch file:
[glb]@echo off
mode con:=nul:
break=off[/glb]
(current batch file text)
[glb]break=on
mode con:=con:[/glb]
These will disable echo of commands to the screen and route the program outputs to the NUL: device. Be sure to test the batch file before adding these lines as they disable the ability to monitor the batch file's progress or any error messages from the batch file.