It's more of a community problem. This server seems to be so anti-pvp. If they did a open woe event free for all, people would just complain they are under geared or say that the devs are forcing them into pvp for items and ask for a pve equivalent. I know I'm being negative, but if anything from my time killing people in woe, colo and 5v5 I've learned that people on this server would just prefer to be "balanced" like colo than to let people enjoy the gear that they worked on getting. (sorry for being so negative in this thread it's just honestly what I think)
THIS.
Although I disagree on WoE itself being fun (it's not PvP, it's a lag mess of just bumrushing objectives and hoping for the best while destroying mortars), I find the WoE map off-hours to be pretty fun. As you've said though, apparently going into a PvP map and attacking someone stains a reputation on your guild (as it has ours, apparently), it's so stupid. I enter a PvP map and I want to attack people. Simple as that.
However, I will say that shabby document and BP farming should not exist in the map. It's supposed to be a PvP area, not a farming one where you're not able to do it in peace. It is indeed the reason most people come to the map though, and without it, it'd be as dead as Prontera's PvP collosseum. The documents and BP farming should be taken out and replaced with fun daily activities that are centered around fighting others, fun challenges like "Kill 10 other players" or somesuch. But sadly right now it's just "waaah, someone killed me in a PvP map, QQQQQQQ, that guild is so stinky".