To me, regardless of whether SB 5/5 is redundant in some gear sets, I'd rather have those merits in my pocket for (a) when I'm using gear that doesn't cap SB (which would happen to me if I upgraded my Heed/Rajas combo for Epona/Rajas) and (b) times when Myoshu isn't up.
Myoshu might not be up for many reasons - busy doing other stuff like recasting shadows or doing damage to hold hate instead of casting spells, dispel, etc. And let's face it, I could toss Myoshu/Yurin at everything, but why spend the tools on things that aren't hard enough to warrant it. For instance, you might still get less downtime by not wasting time casting slow-ass Ichi spells when farming weaker stuff where it's really hard to justify the wasted time/tools, but innate SB is still helpful enough to give a minor benefit. Maybe it even shaves a few mob TP attacks off that aren't so threatening as to be a risk of death, but which might slow things down a little bit due to need to spend some TP on /DNC or something.
If the San spells were actually particularly useful, it would be one thing. But since they really aren't that great...
Pick a San spell 5/5 G1 and 5/5 G2 (and then proceed to use it almost never)
And honestly, if you have other job or general merits to get, you can easily prioritize those over NIN G1/G2 merits. San spell merits were the very last thing I looked at for all of my general and other job merits, and I can't say I really ever missed them. NTE is just saving you a little gil. And SB merits are moderately useful but nothing amazing.
Funny you should bring this up again now. The San spellz were the last thing I mereted out of all my jobs too lol. In anycase, I think i'm going to now agree with you on the bolded part because Ninja tools are costing me a god damn fortune atm. I'm on nin all the time, generally in La'Theine gathering helms or building T3 VNM colours, but the cost of it all is massive. I'm bringing in an average daily income of 50-150K just from selling additional pop items and Tumbler trunks now n then but that just gets spent on Food (30k/stack) Shihe (120k/stack) and all the individual elemental tool are around 20K/stack except the nice Tsuaru, Self enhancing tools (30K) Foe damaging tools (25-30K use alot of these).
I find I do use the wheel a fair bit, everytime my backs turned to the NM for w/e reason I'm spamming the wheel using a very lightly put together Nuke set, I can get 600ish dmg of Futae enhanced Hyoton:San so I don't see using it as pointless dmg. BUT to make life easier, I think i'll be happy losing my Raiton G1 and G2 merits to max SB and especially NTE (which was actually included in the update notes as changes been made to it?)
Either way, both options are ok, i'm just sad Myoshu is gradually losing it effectivness. Would ppl still bother putting it up if you were say sitting around 46-47% SB?