Hello Robinson,
You are right. If you read lecdon_telemac3d.f, around line 1262 (search ITURBV or ITURBH), you will find the change of turbulence model for the other direction when asking to use the k-epsilon model in only one direction.
When using the k-epsilon model, you have to solve a transport equation similar to the ones for U and V or a tracer. I wonder if it is really possible to split in different directions.
You can try to include this subroutine in your Fortran file + comment these lines to test your idea, at least informatically. Just try to do it "for fun" if you want, but I am not sure that it is really correct. Maybe other users already have an answer.
Regards,
Chi-Tuan