Thanks to all who attempted this. Here are the “unscrambled” clues and solutions…
1. Tear cargo pants on outer edges of zinc alloy (2,5) Go crazy G
(cargo)* + zy
2. Crooked bid by partners involved in a deal (5) Askew A
Ask (bid) + EW (partners…)
3. Perplexing like a puzzle with beastly end game? (12) Labyrinthine L
(the beast being the Minotaur)
4. Bustling small village turned into cathedral city (6) Lively L
Vil< + Ely
5. Popular mischief maker embraces deadly thrill (10) Intoxicate I
(the mischief maker being Atë)
6. Ball peculiarly made square (10) Masquerade M
(made square)*
7. What schoolmaster requires to come out from the classroom (7,9) Anagram indicator A
(…and a possible use for the other solutions)
8. Portuguese rebellion defeated rogue elements causing trouble (5) Upset U
(Portuguese - r o g u e)*
9. Skipper’s one with yen for rum (5) Fishy F
Fish + y
10. Perform dance again to new arrangement (5) Rejig R
11. Pull someone across the pond (4) Yank Y
G A L L I M A U F R Y