This is what I've got so far...
- First Cycle
Collect 200 Rupees and Bank them, get Adult Wallet (200R)
- Second Cycle
SoDT when you are 9 and a half in-game hours away from the Ranch houses (Somewhere between the start of the cycle and equipping the Zora Mask)
Hit CT Owl, Withdraw 200R, Buy Bomb Bag + 20 Chus (70R) (20B) (20C)
ISG Slide to Great Bay area, take out bomb while ESSing to the gate and hover over (18B) (19C)
Slide, ESS to water, Hit owl, get Zora Mask (17B)
Slide to South Bay, Flying Zora to Fountain (16B)
Bombchu into Fountain, wrong warp to Ikana, Slide to and Hit owl, get Bomb drop by tree (18B) (5C)
Swim to Swamp, Go to Lost Woods, get 10 Rupees, ESS through Woods, get Bottle (17B) (80R)
Zora Slide to BigOcto, Kill BigOcto as Zora, sidestep through water to palace (16B)
Get Sonata using new strat + 3 hovers instead of Zora Jump (if possible), Get SoS, Get 4 Deku Sticks, Enter Temple (14B) (1 or 4C)
Get Bow and deathwarp out, Warp to CT, buy 20 chus (11B) (20C) (0R)
Exit via WCT, slide to grass near cliff, get 2 bomb drops and 20 rupees*, slide into Milk Road (19B) (20R)
ISG slide to rock, pull out bomb while ESSing, hover in corner next to rock to Ranch, Slide to Houses, Get Bottle (16B) (17C)
Warp to Great Bay, get hookshot, get 2 Eggs (hookshot room and first recoil flip) (13B) (16C)
Warp to North Bay, Deposit Eggs, Go back for last 2 eggs (OoB and second recoil Flip) (7B 14C)
Warp to North Bay, Do Pinnacle Rock, get NWBN
Go to GBT, Do pots twice on the way, get bomb drop from pot near turtle (12B) (200R)
Finish GBT, get bomb drop from pot, warp to Woodfall, get Deku Stick from pot (11B) (9C)
Finish Woodfall using old skip with 7 Superflip Hovers and 2 chu hovers (3B) (0C)
Warp to CT, buy 10 bombs and 20 Chus (13B) (20C) (80R)
Warp to Ikana, get bomb drop from bush, slide to and complete Stone Tower Temple (kill Twinmold with 20 normal arrows) (0B) (0C)
Light arrow bat for 50R (130R)
Warp to CT, buy 20 bombs and 20 chus (0R) (20B) (20C)
Warp to Woodfall, get Deku Stick from Pot, WW to and Complete Snowhead (6B) (1C)
Hover Into Clock Tower (2B) (0C)
Moon (1B)
Updated with more accurate bomb counts.
xxB = Number of Bombs posessed
xxC = Number of Chus posessed
xxR = Number of Rupees posessed
*I found out that the bushes on the cliff can (rarely) produce red rupees. If one is manipulated fast enough, that plus the 10 extra rupees from the Lost Woods can buy 10 bombs and skip getting the 2 slow bomb drops in STT. If not, there are probably other red rupees that take less than 4 seconds, for instance, the chest inside one of the egg tanks in Pirate's Fortress. The 20 rupees can be obtained at any point after buying the bomb bag and first chus.
Also,
Clock Tower Early with 4 explosives for MrGrunz