Apologies for repeating some material discussed earlier. Just trying to get my thoughts in order, to see if anyone sees things differently.
Intrigued by those subtle changes between OP's bail-application affidavit and his plea-explanation on Day 1 of the trial. Since the changes will look suspicious, and will be picked-up on, the defence must really think it's important to get these details into evidence even at the cost of consistency. What are they worried about? Presumably they're anticipating OP's original story being dismantled in specific ways, and are trying to head it off. The plea-explanation is an odd document (to the layman, at least). It's by no means a complete account. OP merely wishes to "emphasise" the seemingly arbitrary points it contains. Would it perhaps have been more accurate if he'd said "I wish to change my story in the following respects pre-emptively, before it looks as though I've been cornered into doing so"?
Bail: "After Reeva finished her yoga exercises she got into bed and we both fell asleep ... During the early morning hours of 14 February 2013, I woke up"
Trial: "I had shortly before spoken to Reeva, who was in bed beside me"
The bail version distinctly implies that only OP woke in the middle of the night. At the time the defence must have thought this reinforced his claimed assumption that RS was still in bed when he heard the noise from the bathroom. The story had to be that it would have seemed impossible to him that she could have gone from fast asleep to wide awake, realised she needed a pee and nipped off to the loo without him being aware of it, all while he was getting the fan in from the balcony right next to the bed. Defence must now have concluded that it'll seem impossible to everyone else as well. As he wasn't quite explicit at the bail hearing about it being only him who'd woken, perhaps they're hoping they can now get away with calmly mentioning that both OP and RS had been awake.
But I think it creates more problems for the defence than it solves. RS - according to OP's version - is on the balcony side of the bed. She's more mobile. Why doesn't she skip out of bed to get the fan in rather than leave it to OP (who makes so much of his limited mobility on his stumps when talking up his feeling of vulnerability)? And when he comes back in and hears the noise from the loo, why doesn't he whisper to her "What was that? ... Did you hear that?"? He doesn't say a word to her; just walks round to his side of the bed, gets his gun, and heads for the loo shouting to the intruder to get out of his house and to Reeva to call the police. Why leave it that long to get her to summon help? And if he thinks he needs his gun to deal with these people, wouldn't he tell her quietly to take cover rather than just leave her lying in bed, wide-awake but oblivious to what's about to go down?
Bail: "I woke, went onto the balcony to bring the fan in."
Trial: "During the early hours of the morning I brought two fans in from the balcony"
Well I suppose there must have been two fans inside the flat when the police arrived, for the new version to have any chance of plausibility. I expect he'll say the fans were rammed tight up against opposite ends of the balcony when he went to get them. He needs every second out there he can get. I still think that if RS was awake enough to chat in bed, and was planning a trip to the loo, she could have said "I'll get the fans in while I'm up". It just seems pointedly unhelpful (and oddly furtive) of her to watch him struggling the long way around the bed and then waiting until he's safely out on the balcony before she sneaks off to the loo.
Bail: "I noticed that the bathroom window was open."
Trial: "I heard the bathroom window sliding open"
The original version was always going to have to go. I think his lawyers liked him only noticing that the window was open once he got to the bathroom because it allowed him a sudden intensifying of fear right at the moment that he was in front of the loo door behind which the intruders would have been hiding. Thereby portraying a split-second panic-induced decision to open fire.
But his security paranoia was already well-established, by himself on Twitter for one thing. He'd also acknowledged that trait by stating that he'd locked his bedroom door, though the real point of that detail might have been to accentuate his feeling of being trapped and hence trigger-happy. The defence must now have realised that it's utterly implausible for such a person to go to bed knowing that the bathroom window was open with a ladder outside. So the original "I heard a noise in the bathroom" now becomes "I heard the bathroom window sliding open". At the bail hearing he couldn't put his finger on what that noise was: it seemed to have been just a troubling, indistinct noise. In the intervening year he's crystallised it in his mind. Not sure I buy that. I think you tend to recognise instantly the characteristic sounds made by your domicile - especially those made more familiar by repetition. And if you don't recognise such a sound on the moment, it's unlikely that it'll come to you months later.
As for what the fans were doing out on the balcony in the first place, I suspect they might have been inside all the time. My preferred scenario is that at no point thus far that evening had they intended to go to sleep, so the balcony doors and the bathroom window had been left open to create a through-draught as it was a hot night. Possibly the defence team took a mental inventory of the configuration and contents of the bedroom so as to come up with something to get OP out of the room and keep him occupied while RS could disappear to the loo. They needed the balcony doors to be closed after retrieving the fans, so that OP could spend time on doors, blinds and curtains while RS was heading for the loo. But they needed a story to get the doors open again, since that was presumably how they were when the police arrived. Hence OP's incongruous and futile actions in running to the balcony to shout for help - across empty streets in the middle of the night - when you'd expect him to be torn between ringing for an ambulance and getting access to RS to administer first-aid.
Of course this is all speculation presented as 'facts' solely in the interests of (relative!) concision. Nothing no one else has thought of, I don't suppose. (Except the bits that are rubbish).