Quote from Xionanx-snip-
I loved the research in 4.0 (and found it to be a vast improvement over the research system in TC3) and had little to no issues with it. The changes made in 4.1 are nice, though I now have to remember to set the config to enable hard mode (all research must be completed in the research table) since I don't particularly care for the ability to "purchase" research. I have had no problems progressing through the mod, and I did not and do not use cheat sheets.
Research has never been difficult in Thaumcraft 4. The majority of difficulty expressed is (or was) often due to the user not approaching things with a logical mind, often spamming random aspects in an attempt to complete research rather than look at it and use logical thinking to figure out which aspects are most likely involved.
I also don't consider running out of research points a bad thing. It's similar to most anything else in the game, where you need to continue gathering resources for what you want to accomplish, be it cobblestone, diamonds, or research points to name a few. You run out, you go get more. That's not a problem as far as I'm concerned.
The fact that you seem to be relying on nodes made from a silverwood tree farm in order to gain your research points is a big factor in why you keep running short. There are hundreds of things to scan besides nodes, and I seriously doubt you've scanned everything possible. Even still, nodes that are created at worldgen tend to have far more aspects within them than nodes you've made from a Silverwood, at least in my experiences. It would behoove you to actually venture into the world and scan nodes you find there as well as anything else you come across that hasn't been scanned.
Research points are common and abundant. Running out consistently would, to me, imply that you're doing something wrong with how you're going about accruing and spending them.