Great question — answering as the UphillTech team:
See below for some comparison screenshots from episode 2, at the beginning of the first scene on the school roof (the one where Homura comes and gives a mysterious warning to Madoka and Sayaka). Judging from the railings surrounding the roof area and the floor tiles, Crunchyroll is using the Blu-Ray/DVD version of Madoka Magica . Not the TV version. TV Blu-Ray Crunchyroll
Full answer by senshin: https://anime.stackexchange.com/a/6268 (CC BY-SA 3.0).
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