The First Doctor special and story were repeated before the Second Doctor special and story, so there is a chance both will be repeated before the Third Doctor special and story in March. If not then, I'm sure at some point BBC America will have a marathon of these 3-hour blocks.
Also, I imagine the 11 25-minute Doctor retrospectives will appear as bonus material on the DVD/Blu-ray release of the 50th anniversary special (since there is no more Who Confidential, these specials seem like a perfect fit for this release).
Regarding the aspect ratio of the classic story being aired for each Doctor, the First Doctor's story was shown as 14:9 on the HD feed, with a little bit of the original 4:3 image from the top and bottom cropped (similar to how BBCA HD shows Star Trek: TNG). The Second Doctor's story was 16:9, but I thought it looked cropped from the 4:3 original, not stretched. I don't think I've ever seen a 4:3 show stretched on BBCA HD (but there could be a first time!).