Filled in as we go.
1-6 =?
7 - Babs Seed
8 - Apple Bloom
9 - Big MacIntosh
10 - Applejack
11 - Granny Smith
12 - Apple Bumpkin (< show name; toy name: Apple Dazzle)
13 - Red Delicious
14 - Red-Gala (< show name; toy name: Crimson Gala)
15 - Apple Cobbler
16 - fan name: Marmalade Jalapeno Popette. (A pony with the exact same looks but a different cutie mark is Orange Wafer.)
17 - (Uncle) Apple Strudel
18 -
19 - Derpibooru fan name: Candy Apple as of >>191876
20 - Braeburn
21 -
22 - Derpibooru fan name: Apple Turnover (as per >>194084) or Apple Brown Betty (>>206840)
23 - Applesauce
24 - Apple Rose (cousin of Granny Smith)
25 - Aunt Orange
26 - Uncle Orange (toy name: Mosely Orange)
27 - unnamed, fan name is Apple Tarty
28 - unconfirmed but likely Golden Delicious (based on cutie mark & the list of names from s01e01)
29 - Pink Lady
30 - Apple Dumpling (? - based on credits)
31 - Derpibooru fan names: Red Hickory and Bucky. (there is some confusion as to maybe he is Half Baked Apple or maybe Caramel Apple from the official list.)
32 - Apple Leaves (mother of 8 including a baby named Apple Tart)
33 - Half Baked Apple
34-
35 -
36 - Apple Fritter (>show name; toy name: Apple Stars; +possible bf? Meadow Song also seen in the episode)
37 - Apple Pie
38 - unconfirmed but likely Apple Cinnamon Crisp (based on cutie mark & the list of names from s01e01)
39 - Hayseed Turnip Truck
Not pictured above:
Caramel Apple (Carrot Top cutie mark swap), Peachy Sweet (from “Over A Barrel”),
Apple Cider,
?
Where the hay is Apple Cider?
“Apple Stars” is another, absent pony:
#31 is Red Hickory
#37 is Apple Cinnamon
#35 is Apple Bushel
Missing green stallion from the song is Green Apple (because why not?)
…Why yes I had to name all the stallions before the females.
http://bonanzaboomers.com/gallery/albums/userpics/normal_Reluctant_Rebel_pic2.jpg
huh, weird