Like the OP says, he's innocent, and is until proven otherwise. John Terry is undoubtedly the most natural leader, and best defender as far as English players are concerned, so IMO he should lead England in the summer.
However, I think the England captaincy receives too much hype. The best, and most effective England line-up would include players from 4, 5, 6 different clubs. I don't understand how anyone can expect a group of 23 players - who play with each other 10 times a year - to respect and look-up to any one player and accept him as their leader. When I think of the likes of John Terry and Steven Gerrard for Chelsea and Liverpool respectively, I think of them being right at the very top. They're extremely influential, often more than the manager, and respected. They're above everyone else. Whereas for England, I don't think any modern-day footballer can have that effect.
If Terry's fit, and has the respect of the squad, he should both start, and lead England to European glory >.>
The media and fans should leave the decisions to Fabio and the FA. Give less distractions to the squad, because they're going to ruin the national football team, again, with their extreme expectations and constant demoralization anyway.
After the summer, if he's found guilty then he should be stripped of both the England and Chelsea captaincy. It would be a disgrace if he wasn't.