I don't see how you could possibly get enough epoxy to flow into the cracks to make an effective repair.  Rules or not, I'd opt for routing some of the crack out.  As far as cleaining is concerned, the linseed penetrates a surprisingly small amount of the stock (maybe 1/16 of an inch).  I wouldn't even bother cleaning it out.

The crack appears to be a maximum of .020" wide, when it is wedged open.  The clearance is less as you move aft on the stock.  I believe the epoxy would not flow down into the crack with this small clearance.   Hence, the need to route out part of the crack (to get the epoxy to flow into the void).  Clamp and squeeze the crack all you want, but, first, you have to get the epoxy in there.
Not to brag, but after 54 year of building, refinishing, repairing and bedding gun stocks, I believe I know a few things about stock repair.

Sounds like a plan to me.  Injecting will probably do the trick and the holes will increase the area for the epoxy to bond.  The rounded holes, filled with epoxy, will further stabilize the stock.

Looking good, Paul. Hey, maybe when you are done, you can put some of those rubber bands around the stock wrist and forearm to improve your grip!

The Krag went back together yesterday evening.  I've loaded up some moderate 150 gr RN loads, and tomorrow I'll hit the range and get her sighted back in. 

I found my front sight blade was a little loose also, so I used a C-clamp and some parallel blocks to slightly close the blade post before reinstalling the blade, which worked like a beauty - now my blade is nice and solid!  This could have added to my accuracy issues. 

I'll post my results tomorrow after my range trip.

Back from the range.  I fired some 65 rounds successfully and the stock is nice and solid!

I fired 15 nice mild rounds with 150 gr RNSP bullets, and 50 rounds of 165 gr SP Spitzer bullets that I wanted to use up.  Now, here is the interesting thing.  I have been trying to work up these Hornady 150 gr RN bullets (45.1 gr IMR4350/CCI 250promer) in an attempt to find a milder round for CMP competitions, but I've had no luck at all with accuracy.  With my elevation set for 200 yards, I was still hitting low.  The Hornady 165 gr SP Spitzers were loaded up more than 4 years ago (with 38.5 gr IMR4064p/CCI 200), and I wanted to just use them up because the brass was relatively new and I need the brass.  I found, however, that these were peppering the center of the target.  Bottom line is, I will order some more of these bullets and load up another 50 rounds.  I'll shoot them in the match next month, and if it goes like I hope, I may just continue shooting them from here on out!  Oh, and since the bullets have a cannelure and I apply a nice mild factory crimp, I have no issues with feeding... they seem to feed like butter!

Here are a few pictures of the Krag stock, now repaired.  Enjoy!

Ok, I went ahead and shot the Krag in a CMP match yesterday.  I did ok... but mostly, that was me and not the Krag.  I use a new load of Hornady 165 grain BTSP spitzers over 36.0 grains of IMR4064 and a CCI 200 primer.  The results were encouraging, although I haven't totally abandoned my ole 220 gr loads yet.  80-1X prone, 83-1X rapid (with a saved round), and 71-0X off hand.  The stock was nice and solid!

Here's a couple pictures of me shooting prone and off hand.