Patch hole on character after attaching Anatomical Elem, restoring it if possible -- Newbie question

lacoscanostra

Heyo, imma new with the program so I do some self exploration for the program.

The problem I encounter is after I attached genital parts and play around with the options. I decide to learn about clothing next so I put a boxer to the model then hide the genital. After I fit the boxer to the model I notice some clipping issues so I apply smoothing option, but now the crotch looks weird. After hiding the boxer I noticed my character model have hole in the crotch area where genital previously located. So I assume that cause the collusion for the smoother modifier not working properly.

I'm looking a solution for this
1. Can I restore the missing crotch area like before I apply the genital parts?
2. IF restoring not possible to restore...
a. Is it possible to let say copy all information on the base model (posing, translation, rotation, scaling, morphing) into a new default model.  
b. maybe copying normal pevis model and attach it to model to overwrite the holey model?
3. So for prevention, I wondering is this where clone option would be used before I attach a process that cutout the character (such as attaching genital, any more process that similar that I need to be careful)?

Thank you :3

PS: English is not my first language so please let me know if there is part that confusing to understand. 

Kerya

I think the Anatomical elements are geografted ... removing a geograft is leading to holes. There was some fix for geografted clothes somewhere ...

Richard Haseltine

Delete the anatomical elements, or fit them to None instead of the base figure.