@gathomas88
I am trying to duplicate the issue with dummy mods, but I want the exact amount of mods you have so I can do so.
Here's a list of all the mods I had active a couple of days ago (posted them in another thread, so I can copy them over easily enough).
I ISB - ASBM compatibility patch
(-New Ship Classes & More v3.0-)
(re)Member Primitives?
-Epic Explosions (Downscaled Ships Version)
25 More Reactors + New Techs
Additional Traits
Advanced Jump Drives (1.4+)
AlphaMod: Divided Loyalties
AlphaMod: Orbital
AlphaMod: Plus
Animated Asari Portraits - Mass Effect
Animated Quarian Portraits - Mass Effect
Autism Namelist
Auto Build and Improve Buildings ENG/RUS/FRA/GER
BJR - Golden Avian Ships
Beautiful Universe v2.0
Better Subjects Updated
Board That Ship!
Carrier Sections
Cat Portraits Dimorphism
Cinematic Camera
Citadels - Tier 4 Defensive Stations
Cloned
CofH UI - Species Mod Window
Color Coded Pop Status Icons
Complete Eldar Name List
Crystallis Ship Modules Expansion
Downscaled Ships
Dreadnought (Downscaled Ships Scaling)
Emblems: Sci-Fi & Others
Epic Explosions
Ethics&Government + AlphaMod
Ethos Unique T&B AlphaModded
Even More Demanding Wars (Warscore Adjustments)
Expanded Hulls - Better Sections
Expanded System Names
Extended Emblems
Extended Traits
Extra Events
Fallen Empires Expanded
Faster Genetic Engineering
Flags: Emblems & Backgrounds
Food Imports/Exports
Fortress XL
Fungoid Protoss Ships
Galactic Dawn: Forgotten Technology
Galaxies Unlimited 1.4+
GeneMod_UI_PlusPlus
Genesis Worlds - Better Homeworlds
Genetic Engineering Buff
Glassing the Planet
Gods and Guardians
Ground Combat Evolved
Guilli's Plantoid Ship Graphics Pack
Guilli's Plantoid Ship Pack - ISBS Doomsday Patch
Guilli's Plantoid Ship Pack - NSC Patch
Gwen's Domesticated Xenofauna
Halo Covenant Species
Homeworld Ethics
IIC - Old Republic Ships
IIC - Revival - Extra Playable Races
IIC - Sith Empire Ships
ISB - Doomsday Weapons & Ships
Icen System Scale and Beauty
Improved Leader Dynamics
Improved Space Battles [Balance]
Improved Space Battles [Graphics]
Infected
Interesting Cities
LEX - Leviathan Events Xtended
Mass Effect - Geth Species
Mass Effect - The Asari Civilization
Milky Way Unleashed
Mod Pack Flag Graphics
More AI Personalities
More Events Mods
More Realistic Star Systems
Multiple Crisis
NSC 3.0 Star Wars Ship models
Natural Selection
No Clustered Starts
Planet Cap Raised
Protoss Species
Remove Aura Graphics
Research All FTL (1.4+)
Researcher Trait 'Fix'
Ringworld Restoration
SD's Better Strike Craft
SD's Durable Ether Drake
Select starting ruler's traits
Shanty Town
Ship Power Stations
Sol Expanded (25 tile Earth)
Star Trek Federation TMP - Ships Standalone
Star Trek Star Systems
Star Wars Empire Ships
Star Wars Pirate Addon
Star Wars Rebel Ships
Stellar Expansion
Stellar Expansion - FTL Enhanced
Stellar Expansion - Genetics
Stellar Expansion - Geoengineering
Stellar Expansion - Strategic Resources
Stellar Expansion - Terraforming
Stellar Expansion - Terraforming (Extreme)
Stellar Expansion - Voidcraft
Stellaris Tycoon Redux
Stellaris: AlphaMod
Svafa's Expanded Species Traits
Systems Alliance (Mass Effect) Ships
TFW's Bunch of Ship Parts
The Belt Updated (1.4 Kennedy)
Ticking Warscore
Titan Laser + Resized Lances
Titan Weapons
UI Overhaul 1080p
Unique Resources
Unique Systems Spawn 100%
War Name Variety (No More Brawls)
XL Cruise Missiles
ZBeautiful Battles
I have about twice that many subscribed in total. However, I have noticed that the lag only occurs when the mods are actually active. It gets worse as I work my way from the top of the list to the bottom, activating mods as I go.