Sorry for the late reply.
It is hard to recommend a general optimal grouping of attachments to atlas textures without additional info. Repacking may be beneficial in some cases, but if you have e.g. 100 characters that use the same two atlas textures, then repacking may end up requiring more draw calls (with 100 different textures) than having those 100 characters use the same two atlas textures.
Could you please describe your scenario or share some screenshots? Please describe approximately how many skeletons are visible at once, how many share the same atlas, how many equiment or customization items are available, how many are equipped at once, etc.
Also please note that when you get many draw calls at a single skeleton when using two atlas textures (before repacking), you may reduce the number of draw calls by grouping attachments to atlas textures differently, as described here:
spine-unity Runtime Documentation: Material Switching and Draw Calls