Temp Controls Bake 
Bakes the current temp controls back into the original rig and removes the temprorary setup. It is now using a bake method designed specifically for temp controls.
Bake To
Selection filter, bakes the selected chain, all the ctrl rig, or the relative rig.
- All Ctrl Rigs bakes and removes all the ctrl rigs that are available in the scene.
- Selected Chains bake and remove only the chains that are connected to the current selection. It will remove the ctrl rig only after all chains are removed
- Relative Ctrl Rigs in case of muliple ctrl rigs, it will bake and remove only the ctrl rigs that are related to the current selection.
Filters 
Filter specific attributes that you don't want to be included in the bake. This filter uses the same menu from the anim tools filter, however only the location, rotation and scale are relevant for filtering the bake.
Keyframes
Smart Bake
Will keep the keyframe count on the original bones, and recalculate the curve handles to get the closest result to the values coming from the temp controls. If it is turned off or an fcurve channel has less then 3 keyframes, then it will bake on every frame within fcurve, action or scene frame range.
All Layers
Includes smartbake from all layers. It takes the keyframe postion from all the layers/nla strips altogether
Tip
If you want to bake temp ctrls animation into a new animation layer then
Create a new layer, make sure you create it in the original rig and not the temp rig.
When baking into the new layer it will bake on every frame, since there are currently no available keyframes,
however checking "All Layers" will use the keyframe positions from all the other layers.
Bake From:
Uses keyframes positions from original bone or/and from the temp ctrls keyframes
Clean:
Cleans up the constraints and remove the Temp ctrls after baking. If it is unchecked the temp controls and constraints on the original bones will not be removed.
Note
Temp Ctrls bake can bake to bones that have child of, and some other constraints. To work good with constraints, it is recommended to use Before or After mix modes. With other mix modes like Offset(Legacy) the bake will get an extra offset.
In case other type of constraints are included, then it would be better to turn them off when baking to avoid an extra offset.