...Doesn't this only prove that --as everyone should've already thought-- the jutsu themselves need to be balanced, rather than incorporating specific rock-paper-scissors restrictions on your choice of jutsu?
Assuming for a second that Vreg&Friends aren't complete morons who never listen to the feedback of the people using their jutsu, and who also don't have two brain-cells to think with...the nature of players --some, anyway-- is to find the most efficient, simplistic way to win. Now with all of the jutsu that are going to be available, how many combinations do you think are possible? How many of them will likely rival each other in terms of effectiveness, especially given that your character will be naturally stronger in training with some jutsu and weaker with others (Chakra-type will more than likely severely limit your strength with jutsu not of its affinity)? I'm guessing more than a handful of combinations, at least.
Now restrict how many jutsu types you can learn (additionally, this is also being hampered by StarWarsGalaxies levels of *mastery* times, per jutsu)....I'm guessing you'll still find a handful, at least. Why? Because players will continue to seek out the best combinations possible, and unless you're working with a simple list of 3-5 examples, I can guarantee that there'll always be several methods for knocking the wind out of your opponents. Even *if* one specific combination is slightly more useful than the other power-houses...is that only factoring in solo-duels? "When facing an opponent of superior skill, use superior numbers."
It won't be the two jutsu that you'll be worrying about, it'll be the group of people using several dozen in tandem. Therefore, the balance of the jutsu themselves should be the focus of your anxiety here, not necessarily the extent of your choice of techniques.
Edit: If anything, I'd mostly be worried about how the KKG will be incorporated into the game. Some --such as magnetism-- could be pretty hard counters, even to groups of players...though of course, you'll probably be banking on ambushing your opponents most of the time.
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