Hello @Britney_Zpheres
The answer will be whatever the answer will be. 
Transpose Set in the folder options activates the Gizmo “Transpose All Selected Subtools” feature. This is the Icon on the far right above the Gizmo manipulator. When this mode is active the icon is expanded into “pancake stack” icon. As long as this mode is active then subtools that are active in this mode will appear solid, and subtools that are de-selected will have that horizontal strike-through pattern.
This mode has some of the same functionality as the traditional mesh visibility shortcuts in ZBrush. No matter what selection of subtools you start with you can always:
- Shift + Ctrl click on a subtool to select or deselect it
- Shift+ Ctrl click in empty canvas space to invert the selection
- Shift + Ctrl drag a marquee in empty canvas space to clear all selection assignments and make all visible subtools active
Once you have activated this feature with Transpose Set, you will need to switch it off to return to the normal behavior of only affecting the active subtool with transpose operations. This will remove the horizontal pattern effect.
Good luck!