My personal biggest problem with hero gear is armor. Because we can't have multiple armor sets for a hero, every time you need to rerune them for a different purpose, you have to manually salvage off all the runes that need to be changed then reapply them. Yes, I'm aware that more generic setups might work well, but often I'll need them to serve different purposes depending on the situation.
For example, there are 3 elementalist heroes. I have vekk set up as a water ele, zhed set up as a fire ele, and sousuke set up as an earth ele, depending on which would be best for the situation. But what if I want to run, say, dual SF on my heroes? Then I'd need to rerune sousuke as a fire ele. And I don't want to put the energy storage rune on the headpiece, since he really doesn't need another two points in ES.
So I have to salvage off the Earth rune from Sousuke's head, replace it with a fire magic rune.
Now that's a very simple switch that requires only one salvage and one reapplication. But there are many more complicated rune rearranging/replacing situations that occur fairly often for me.
Another example is when running discordway (please do not flame on my usage of this build; this is not the forum for discussing its arguable "lameness"). For this, the three necro heroes are all runed up with full survivor insignias (and a bloodstained), vigors, minor death magic on their headpieces, a minor soul reaping (if I have the money for it), and the last two spaces are vitaes, unless the necro needs another necro att (only Olias uses curses).
This is all fine and dandy, but when I need to have an AotL mm, I need to entirely rerune one of the necros for the build (superior death magic, take out curses, a higher vigor, etc).
This may not seem like a huge deal, but when you use heroes a lot, it can get VERY confusing constantly remembering what went on which hero for each build. Honestly, I wish there was a system like the PvP Equipment template for heroes. In my head, I'm imagining it saving the armor setups and switching them in and out when they're needed, but obviously that seems like it'd make little sense coding-wise (since the runes are physical, salvageable objects, not infinitely-creatable pvp items).
Plus, you need to keep all of the spare runes needed for switching any of your heroes in an easily accessible place, like the xunlai, but that's incredibly inconvenient because there are other things I need to keep there. I'd probably just keep the runes on a storage character, but then I'd have to keep switching characters whenever I needed a new rune for a hero.
Basically, I agree with your point about it being very difficult to keep track of all the hero gear information, and am adding the above to augment your point.
Terribly sorry about the wall of text. I'm far too tired to be concise.
