Bonus points for being a happy SHAFT accident. Along with many animation errors, all the BGM used for the TV airing of Episode 1 somehow ended up being played at 92% speed and pitch. This ended up giving "Magia" a darker, more epic tone to it. The fixed release is sometimes seen as a downgrade.
In the "Hikaru Furu" single, we get a remix of "Magia" called "Magia (Quattro)" and it is amazing.
"Sagitta Luminis" ("Arrow of Light"), aka Madokami's theme from the last episode, and quite possibly the most beautiful tune in the entire series.
"Hikari Furu" ("Full Light"), Kalafina's version of "Sagitta Luminis". As beautiful as "Credens Justitiam" was.
"Cubiculum Album" ("White Room") is the song that's playing during Madoka's and Homura's heart wrenching goodbye.
"Taenia Memoriae" ("The Ribbon of Memories") is the sweeping and touching piano track that is played when Homura meets Madoka's family on the river bank in Episode 12.
"Surgam Identidem" ("I Shall Always Rise"), Walpurgis Night's Theme is definitely one of the most epic songs of the entire show. The fact that it was played during a Moment of Awesome only makes it even more memorable.
"Nox Walpurgis" ("Walpurgis Night"), another of Walpurgis Night's themes, played when Homura realized how screwed she was.
"Amicae Carae Meae" ("My Beloved Friends"), a wonderful and beautiful-sounding track, very peaceful and somber.
"Mata Ashita" ("See You Tomorrow"), a song regarded as Madoka's Character Song and played at the end of the first two episodes on the Blu Ray release. Sounds sweet and peppy, like most Magical Girl anime theme songs, until you understand the lyrics, which tell about a lonely girl.
"Terror Adhaerens" ("Adhering Terror") is a very powerful, foreboding and epic song with an apprehensive tone, especially of the second half. It most definitely lives up to its name.
Examples from the first two movies and other media
"Luminous", the new theme for the opening of the first two movies.