Yes and no. You should be able to set those flags in 3dsMax if you use B3D Pipeline. I vaguely recall that you can set up the flags automatically in code. There's a command called something-filter which lets you specify certain texture flags dependant upon the filename of the texture having a certain string in it. ( EG: "_Mask" on the end of a texture could be used to enable the mask flag. )
If you can't find it, I'll have to dig out some old code because I don't have B3D installed ATM.
If you can't find it, I'll have to dig out some old code because I don't have B3D installed ATM.