Why are folks looking into this so...critically? Character romance is nothing new to JRPGs at all, and as this is an E-rated game GF doesn't expect you to throw Serena/Calem/Shauna/Tierno into a bedroom with them. And I hate to say this, but homosexuality will find no place in this franchise unless they plan on adjusting their E-rated target audience--some games are banned explicitly for this material in videogames, in some countries.
Does that make it right? No, but it's just the way it is right now. Did gamers playing a the characters listed below share their player character's feelings for the character? I highly doubt it, but is it really worth turning into an argument over...? I don't say this to shoot down the opposing community, but kids are allowed to fall in love as much as we adults, and there are plenty examples of this in the anime.
Tidus/Yuna, Zidane/Dagger and Cloud/Aerith (and possibly Tifa) from Final Fantasy, Serge/Kid or Schala from Chrono Cross, Justin and Feena from the first Grandia...the list is absolutely endless. Did people complain about them in any of their games? If they did, they sure didn't do to the extremes some people seem to be taking this.