I use Bash, Bashed Patch, Boss and OBSE, and I've got Shivering Isles with the latest patch. Here's my load order:
Active Mod Files:00 Oblivion.esm01 All Natural Base.esm [Version 0.9.8]02 Cobl Main.esm [Version 1.72]03 Unofficial Oblivion Patch.esp [Version 3.2.4]04 DLCShiveringIsles.esp05 Atmospheric Loading Screens - Random Quotes.esp06 All Natural - Real Lights.esp [Version 0.9.9]07 All Natural.esp [Version 0.9.8]08 All Natural - SI.esp [Version 0.9.8]++ All Natural - EW + NW + AWS.esp [Version 0.9.6]09 Enhanced Water v2.0 HD.esp0A MIS Low Wind.esp0B Book Jackets Oblivion.esp++ Item interchange - Extraction.esp [Version 0.76]++ EVE_StockEquipmentReplacer.esp0C Rope Ladders v1.esp0D Dude Wheres My Horse.esp0E Cobl Glue.esp [Version 1.72]0F Cobl Si.esp [Version 1.63]++ Cobl Tweaks.esp [Version 1.44]10 Creatures Alive v1.3.esp11 adTreeHome.esp12 adTH-druidsdomain.esp13 BravilSeaDomes.esp14 hackdirtabyss.esp15 LetThePeopleDrink.esp [Version 2.5]16 Slimy Mudhole.esp17 Woodcutters_Cabin_COBL.esp18 Lynges_Thieves_Highway-10256.esp19 xuldarkforest.esp [Version 1.0.4]1A xulStendarrValley.esp [Version 1.2.2]1B xulTheHeath.esp1C XulEntiusGorge.esp1D xulFallenleafEverglade.esp [Version 1.3.1]1E xulColovianHighlands_EV.esp [Version 1.2.1]1F xulChorrolHinterland.esp [Version 1.2.2]20 xulBeachesOfCyrodiilLostCoast.esp [Version 1.6.3]21 xulBravilBarrowfields.esp [Version 1.3.2]22 xulLushWoodlands.esp [Version 1.3]23 xulAncientYews.esp [Version 1.4.2]24 xulAncientRedwoods.esp [Version 1.6]25 xulCloudtopMountains.esp [Version 1.0.3]26 xulArriusCreek.esp [Version 1.1.3]27 xulPatch_AY_AC.esp [Version 1.1]28 xulRollingHills_EV.esp [Version 1.3.2]29 xulPantherRiver.esp2A xulRiverEthe.esp [Version 1.0.2]2B xulBrenaRiverRavine.esp [Version 1.0.2]2C xulImperialIsle.esp [Version 1.6.3]2D xulBlackwoodForest.esp2E xulCheydinhalFalls.esp [Version 1.0.1]2F xulAspenWood.esp [Version 1.0.1]30 xulSkingradOutskirts.esp31 JADDockTunnel.esp32 Harvest [Flora].esp [Version 3.0.0]++ Harvest [Flora] - Shivering Isles.esp [Version 3.0.0]33 EVE_ShiveringIslesEasterEggs.esp34 2nd to 1st person.esp35 Kobu's Stamina Mod.esp [Version 1.01]36 P1DkeyChain.esp [Version 5.00]37 Salmo the Baker, Cobl.esp [Version 3.08]38 Quest Award Leveller.esp [Version 2.0.1]39 Alternate Start Revamped.esp3A Gather Ye Rosebuds.esp3B SupremeMagicka.esp [Version 0.89]3C SM_ShiveringIsles.esp [Version 0.86]++ SM_COBL.esp [Version 0.86]3D SM_EnchantStaff.esp [Version 0.80]++ SM_UnlockSpells.esp [Version 0.70]++ SM_Scrolls.esp [Version 0.84]++ SM_SigilStone.esp [Version 0.83]3E Stealth Entrances v1.esp3F Smarter Mercantile Leveling - Multi.esp40 Stylish Jump.esp** Dark Dungeons.esp41 Dark Dungeons - SI.esp++ Item interchange - Placement.esp [Version 0.76]42 X.Races.Comp.esp43 Cobl Races.esp [Version 1.52]** Cobl Races TNR.esp [Version 1.53]** Cobl Races TNR SI.esp [Version 1.53]++ Cobl Races - Balanced.esp [Version 1.52]44 NoMerchantBarterpvssyr.esp++ [GFX]_Initial_Glow-all.esp++ [GFX]_Initial_Glow-creatures.esp++ Cobl Filter Late MERGE ONLY.esp [Version 1.53]45 Cobl Silent Equip Misc.esp [Version 01]** All Natural - Indoor Weather Filter For Mods.esp [Version 0.9.9]46 Bashed Patch, 0.esp47 Oblivion Graphics Extender Support.esp [Version 0.2]
The main mods I use are All Natural, Cobl, Unique Landscapes, Supreme Magicka and Harvest [Flora].
I tried deactivating Alternate Start Revamped, but that didn't help at all :/