Automated "Animator Friendly Rigging" 1.0.6 for Maya (maya script)

Thanks for the script! It workes great except for the upLeg rotation problem that I encountered:

When in dummy stage, I rotated the l_upLeg_dummy on the Y and Z-axis to match the angle of the leg mesh. After creating the rig, the leg flips when the foot control rises above the knee level. I switched from IK to FK and the controls for l_fk_upLeg_anim is rotated 90 degress off. I did some tests and it seems that rotating l_upLeg_dummy on the Z-axis causes the problem to occur.

I have uploaded an image showing the problem. The rig is in its default state right after the create rig stage. Is there a way to fix it?

Thanks in advance.