An example would be categorize by mix-up types, followed by corner/center screen designation, then list combos with increasing magatama use.
So something that looks like
~Combo Starter components~
LOW:
Center-
Proxy, ie close to corner (name it how you will, but generally it's within 1/4 stage length)
Corner-
(N magatama)~~~~~
HIGH:
THROW:
~~~~
CATCH:
~~~~
AIR THROW:
AIR CATCH:
etc etc
The next section then can have the combo pieces, divided into ground parts (including launcher) and aerial parts. After similar center/corner division, they can then be divided as dmg part or set-up part, etc etc.
This will allow you to just write something like
THROW:
Center-
Throw>Gurren>Combo piece #a(set-up 1),b(set-up 2),c(dmg), etc etc
Corner-
Throw>renka>combo piece #m, n, o
and refer to whatever you are looking for.