This should be a post of hallelujah's and whoops of delight :(

However after getting through the minefield of down loading mods, getting the readme files in the right place, using the snapshots and enabling the mods all without any trouble I've had 3 CTD's. The first two I put down to me being very inconsistent and overwhelming the game with constant selections whilst finding out where everything was and general poking around. 2 of those CTD's happened at the same elapsed time (1h 9m). Today I was playing properly and trying to sink 2 polish destroyers and whilst under depth charge attack, that was inaccurate, I had another CTD at 1hr 4m.
I'm using Sjizzles mod list (minus the Radio_Messages_1_2_0_German_Voices mod) and his snapshots from the above post.
Could these CTD be memory/graphic card related? it's strange that these and the previous crashes I had have all happened at about the same game duration.

Mod list:
Generic Mod Enabler - v2.6.0.157
[C:\Ubisoft\Silent Hunter 5\MODS]

Accurate German Flags
SteelViking's Interior Mod V1.2
SteelViking's Interior Mod V1.2.2 Patch
silentmichal's interior mod 1.2.3
DynEnv v2.9 - 1. Main Mod
DynEnv v2.9 - 4.a Camera Filters - Realistic Colors
DynEnv v2.9 - Wave Mechanics - Gale (Improved)
DynEnv v2.9 - 12. Sounds
Better Sea Foam Dynamic Env Compatible
Conus' Graphic Mod 1.0
Small_trees_SH5_V1
sobers smoke screen V1 SH5 (DynEnv compatible)
sobers water splash anim SH5
sobers best ever fog V22 SH5
sobers base sky mechanics V1
sobers better terrain v3 SH5
sobers more trees SH5
SH5_7A_Conning_Fix
Equipment_Upgrades_Fix_v1_4_byTheBeast
Equipment_Upgrades_Fix_v1_4_Patch_1
#Equipment_Upgrades_Fix_v1_4_Patch_1_HotFix
Equipment_Upgrades_Fix_v1_4_Patch_1 (available by date) V9 by sober
EUF_UBoat_FX_v0_0_3_ byTheBeast
AI_sub_crew_1_0_2_TheDarkWraith
FX_Update_0_0_22_ByTheDarkWraith
FX_Update_0_0_22_Torpedoes (modified for torpedoes failure patches)
MightyFine Crew Mod 1.2.1 Alt faces
MCCD_1.04_MFCM_1.2.1_compatible
Naights Submaine Textures v1.2G (PUV)
Stormys DBSM SH5 v1.3 Basemod
Stormys DBSM SH5 v1.3 HOTFIX 3
Stormys DBSM SH5 v1.3 optional -6db damped Sonarguy
DBSM_Music_1_0_4
Parts Magui V 3.01 by DrJones
Parts Magui Patch 3.02
Parts Magui V 3.01 by DrJones - English Menu
Sjizzle & Fifi Mods for magui v 0.0.2
Fifi mods for CSP Magui V2
Manos Scopes-patch for 16x9
gap - Manos Scopes Reduced Light Transmission Optics v 2 for CSP Magui - (ZEISS)
IRAI_0_0_39_ByTheDarkWraith
IRAI_0_0_39_ByTheDarkWraith_Patch_1
R.E.M_by_Xrundel_TheBeast_1.2
R.E.M. - hydrophone mute for player fix (TDW compatible)
Depth Charge Fix Reduced Explosion Range
Cerberus62 Corrected Depth Charge Projector 1.0
OPEN HORIZONS II_full v2.2
R.S.D. - Reworked Submarine Damage v3 by vdr1981
SkyBaron's Leigh Light for SH5 1.1
Sobers Terrain fix for OH2 V2.2
IO_StrategicMap_4_3_for_Parts Magui Patch V 3.02 by DrJones
IO_MapCourseLine_normal pencil_mod
Expanded Navies by Cybermat47 v.1.0.01
Reworked Morale and Abilities v.1.1
sobers NO water drops V1
Grossdeutscher Rundfunk
smaller flags for Warships 1_0b
MadMaxs_SH5_Subdiesel (mono) v2
sobers bad weather deck gun V5 SH5
sobers hud sounds V1 SH5
RPM Hydrophon for Magui V3.02
RPM Hydrophon Charts English
sobers Realistic contrast V6 SH5
gap - Alternative Cursors & KM Map Tools v2 - 1. Base Mod
gap - Alternative Cursors & KM Map Tools v2 - 2.a Alternate Tool Graphics - Wooden Handle
gap - Alternative Cursors & KM Map Tools v2 - 3. Shadowed Cursors
gap - Alternative Cursors & KM Map Tools v2 - 4.b Alternate Dialog Cursors - Shadowed
Warfox deck crew always whispering SH5 German Version
Submarine's .sim&cfg (modified for engine ratio + independent control patches).7z
Change days in bunker

Specs
Intel(R) Core(TM) i7-2600K CPU @ 3.40GHz (8 CPUs), ~3.7GHz 64 bit
NVIDIA GeForce GTS 450 1GB GDDR5
RAM 8GB
HDD Barracuda 7200.12 1TB

Disheartened
:down: :hmph:

An update. I continued as was suggested with loading Sjizzle's mod list in 10 (ish) batches of mods until I had loaded up to "Fifu mods for CSP Magui v1". It was at this point that I decided that I didn't like the game format nor the German speech. I tend to like to know what my crew are reporting.
I've now switched to Sobers mod list 0900 23092013. All has gone well until the latest batch of 10 mods were installed and enabled, up to and including Sobers green crew training v4 SH5. Since then I've had two CTD's the first was navigating out of Kiel harbour whilst talking to the crew and getting raised morale rewards.
The second, today, was outside Grimsby/Hull estuary about 50- 75 miles offshore whilst being attacked by aircraft. The first attack took me by surprise and I suffered significant damage; the second attack I tried to defend against the aircraft with the flak gun, again probably suffering fatal damage to the sub. Instead of the sunk video I received the CTD.
As has been suggested I'm now going to test the latest installed batch of mods going half and half to try to determine the faulty mod.
I'm using antilag at 30fps and look forward at 2 frames. I haven't at present used either the TDW Generic Patcher or the OptionsFileEditorViewer as I wanted just to use the basic unchanged mods.
Do you have any suggestions?
Cheers
Ian

A modlist would help ? If it's just sober's list without changes, then perhaps ask in his topic ?

Some of the mods on that list require generic patcher to be enabled I think .. that in itself could probably cause issues. The generic patcher is there to solve real issues .. not using it could very well be the cause of CTD's if you then proceed to use a modlist that is based on them being enabled ;)