Well, you can't have a full bestiary if you don't do all Lunar Trials, so yeah, I did those. I raided all treasure chests in the random floors. Kitchen Knife, Excalibur, Odin, Asura, Leviathan, Bahamut, all accounted for. Though now that you mention it, I got Cecil's best weapon on the first try of his trial, so I skipped on the flan sword. Might need to do it again. I even beat Brachioradios trice to give Cecil, Kain and Rydia a Hero Shield. I did visit the Developer's Room.

As for levels, they aren't lv 99 yet, but all (except Rydia) are around lv 90. But it's far too late now for perfect stats, and frankly I don't see the point. It's not as if doing that will give any kind of reward or make things easier, there's already nothing left in the game that can even pose a threat to me (seriously, 3 characters absorb all elemental damage, Rydia has adamant armour and all five characters are as good as immune to status effects). So if perfect stats are needed for a 100% game, I guess I won't get a 100% game, but in that case I don't mind. Perfect stats is where I draw the line.

One thing I noticed is that Rydia is SLOW when it comes to leveling up. Seriously! Everybody else is 90 or more, while she's still lingering at 85. I don't get it.