Motobrant's original thread index.
I'll start to add the stuff that's missing and update this in general.
If you have a link that you want added, pm me.
Thanks for the links DirtJack
Threads created after the death of the megathread
What happened to the BIG 690 thread?
Check out Brown Dog's New Owner's list, recovered by Sutherngintelmen vi Google cache in post
62 of the above thread
Crank's New and improved KTM690 WUNDERFEST - slightly more … rant oriented 
Seth S's KTM 690 Mega thread rev 2.0 E/R/RR/SM/SMC/Duke/Duke R - more of a technical slant 
New threads since Motobrant
bigborefan's KTM 690E - All Things Suspension Related
Mudguts 690R build thread
Speed Daddy's MY KTM 690 Adventure
DirtJack's KTM 690e fuel pump (FI) issues and solutions
Barton's Code Orange: Building up Three and a Half KTM 690 R's
Gros Buck's KTM 690 Sigutech Cluth Slave group buy
Maurizio's KTM 690 E & TuneECU thread
Maurizio's 690 E(nduro)XC-R build-up (A là Flanny)
A DIY for the 690 Courtesy of Evil Invader
Seth S, Australia Safari 2011 - blog
Valve adjustments by dandini
another valve adjust how-to; supermotojunkie.com
Round The World Threads
Dandini's RTW 690 Enduro
Fishfund's 25,000 miles with Luke and Nick -
…
…
Ronin Moto's RTW adventure 2012-2013?14?! RTW with Noah on a KTM 690
External Sites
Uller provided this link in Seth's New Mega Thread
KTM 690 LC4 Owners Info
Picture Threads
TCross66's KTM 690 Enduro/Rally/Duke/SM Picture Thread!!!!
ADVTuga's KTM 690 Enduro owners show off your bike !
Links Useful to Everyone
How-To’s
Neduro's Tire Changing Class
General 690 Info
Big SMR Thread many pages of reviews and pics
Things to check!
Does your tank move?
690 Supermoto SMR
MotorcycleUSA 690 SMR
wufdog 690 SMR
Mods, questions, ideas
Air Filters, Exhaust and everything in between
690 Enduro Exhaust
Air Filter Suplement
Electrical issues, questions and solutions(hopefully)
Loaded Wiring Handwarmers
Suspension
Lowering the 690
Raising the 690
Fuel tanks and Filler things
Tank thread
Luggage Threads
Luggage for the 690
General Soft Luggage thread
Wind Screen Threads
SuperDuke Windscreen on a 690 Enduro
Per Bike Nomad's request - Ian B's
New Lynx Fairing for the KTM 690 from Britannia Composites
Mirror Threads
Handlebar Controls and Grips
A Discussion on Grips
Risers... Pennytech, Touratech, Sommer, etc?
"Quickie" KTM bar riser extensions
Bark Busters (aka Handguards)
Thread index, No Bark Busters?
Ergonomics or Bar Height, Seat Height, and Peg Height?
Brake Pedals!
Mods and Upgrades
Reviews of Renazco Racing Seats
Buckster
ChrisC
meat popsicle
creeper
PASSMORE
A Rad Review of Guts Racing Seats
Review of Bill Mayer Saddles
Review of Russell Seat
Footpegs
Applicable threads of interest
Discussions
Ever wonder about fork oil?
Tires
Rear tire for my 640?
Creeper’s Inner Tube Thread
Forks and Shocks
Fork Oil and Suspension Questions
Fork Maintainence, complete or routine?
Service and Repairs
Servicing the Forks
LC4 fork oil level?
KTM LC4 Fork Oil Change
Servicing the Fork Seals (thanks Surly! )
Cleaning fork seals
Brakes
Air in Front Brakes?
Spokes – Love‘em or Hate’em; its up to you (more in Post #2 on spokes and brake squeal)
Spoked Wheel Maintenance
Mods and Upgrades
Infinity Subtanks on a 640
Fork subtanks... are they for you?
General Discussions
Why Clean Your Bike
The LC4 Skidplate Thread (and skidplates in general)
Tools, Toolkits, and Related Widgets
Torque Wrench Thread
Loctite Thread