Really general:
Good:
No EQ/Candy: -40
No Cycling Candy: -3.8
Silph (Redbar + No X Speed/Spec - RS Growlithe): -~27
Blizzards instead of EQ: -5.8
Total: -1:16.6

Bad:
Extra Flies - centre: +1.5
Extra Max Elixir: +6.3
Both Mansion Candies: +10.6
Koga's Gym (Generally no redbar, using HD instead of EQ): +~29
Get Fissure: +5
Agatha: (Really varies): +1.0
Total: +52.4

Risks:
Added:
Sabrina: ~40%
Drowzee crit Psychic: ~1.5%
Weezing Crit: ~9% (This is off basis that you're about 22% chance to already be in redbar)
Blizzards: Victreebel/Vileplume/Rhyhorn can kill if you miss. ~9%
Setup on Giovanni: ~4 or 38% [Depending on whether in ohko range or not. High redbar isn't]
Total: ~55% death

Removed:
Hypno: ~23%
Gyarados crit: ~16% (It missing is also annoying)
Sometimes more health to tank a Machoke hit: ~3%
Total: ~38% death

Other:
Tons of other menus are different, but too many for me to count out. Some are good (e.g. Horn Drill in a menu), some are bad (e.g. scrolll down to re-use candies)

Other risks:
Added:
Weezing using X Att, and not getting redbar before Silph: 25%

Removed:
Blizzard miss Golbat into stupid shit: ~6%
Glare from Arbok forcing X Speed bullshit: 25%