Well here goes, via PM I told you I'd give it my best shot so here it is.
Tools will be at the end.
You say that the case is aluminum,*if*it is a Lian Li the four pop-rivets can be drilled out and the top removed. Working the top panel off the case is easyer. Just drill the rivets with an 1/8" drill till the heads spin. With a tiny screw driver push out the rivet. Reinstall the top panel, using short 6-32 screws with nuts. Be sure and mark the inside of the top panel for front so it doesn't get reversed on reinstall.
To set-up. Tape the fans firmly, exactly where they need to be. Chuck an 11/64" drill bit in the drill motor, then carefully insert it through the mounting holes then give it a spin with light pressure, this will cause a divet where the holes need to be. Do not drill through at this time. Keep the drill motor vertical while doing this so the taped down fan is not displaced. Remove the fans, place a wooden board behind the panel to back it up. Now drill the holes through. Mount the fans suction side down with 8-32 screws and nuts. The holes should all line-up. With a pencil held at an acute angle, mark the area to be removed. The pencil mark will be made from the inside of the fan.
Remove the fans. I would screw a board to the off-side of the panel using sheet metal or wood screws. This will provide back-up. Now drill a series of 3/8" holes 5/8" away from the pencil mark. Do not use high speeds when drilling these holes, use a moderate speed. Try to keep them from over lapping but close to eachother. Remove the board. Now take a nibbler and clip the bits between the holes. The center falls out.
Now go around the hole dressing it up with the nibbler. Done.
A nibbler makes short stright cuts, about 5/16" long, so this is going to take some time.
The holes for you hoses can be done with a nibbler. Just drill a 3/8" hole where you want the hose then dress/cut the diameter with the nibbler.
Now to dress-up the holes. For the hoses, ACE Hardware(any hardware store)sells rubber grommets that will inset into the hose holes. Say the hose has a 5/8" OD. A grommet for that would fit a 3/4" or 1" hole. Buy these grommets before making the hose holes, so you can fit them.
To dress-up the fan hole, if you wish. Buy some small diameter vacuum hose, split it length wise, then fit it around the fan hole. Push it lightly to compress the rubber against itself. When you get to the joint cut it just a tad long. Butt the ends together. It will not fall out.
Using a CD for hole size is OK but it is a bit large. Hold a CD to a 120mm fan and you will see.
Using a jig-saw is not for the new power tool user. Apprehension will cause damage.
Tools.
You PMed me the battery operated tool pack link. Cordless tools are for portable light duty use. There are much better alternatives for our purposes.
From Harbor Freight. I have and use these bargain tools.
3/8" electric drill motor. Variable speed, reversable, keyless chuck. About $25.
Part#03670
Only use it at high speed for sanding, not drilling.
A 10 pack of 11/64" drill bits. A couple of 3/8" drill bits or buy a drill selection in a case.
While at Harbor Freight, buy a heat gun. They are on sale for $9.95. Part#35776
Why?? Heat shrinkable tubing, to warm up hoses for instalation, to warm up stuck heatsinks for removal, to accelerate the drying time of silicone adhesives or the set-up time of epoxy. It's a long list.
While at Harbor Freight buy a kit of files. They are cheap. Make sure to get several small rat tail files because these really are a blessing when holes don't align properly.
At Jab-Tech.com, in the tool section, buy a $8 nibbler. I send you there because it is made in Taiwan and is a good one. I just got mine last Monday. It will cut 18gauge steel(.046") or 1.5mm aluminum(.062"). Works good.
Files can be use to really dress-up your work before installing the grommets. Dressed up with a file the fan holes may not need rubber tubing to look presentable.
I like using cutting fluid when working metal. Try to locate and buy some Rapid-Tap, use it for everything but filing. A light smear of it with your finger before using the nibbler takes 40% of the effort out of the squeeze. Practice with the nibbler on the centers that were removed for the fan holes to get a feel for the tool.
Post or PM me if you want/need more. I'll post it here.
...Galvanized