The problem I have with deck building is you not only want to anticipate how you can use it but how your opponent can disrupt it. That requires too much forward thinking since you're having to play theoretical games in your head in order to weigh the best option to make your deck with.
"Can they negate this effect and will my deck still hold water if they do", "If they play this card would I be able to draw the proper response card out of my own deck given a random shuffle", "What is the overall strategy this deck needs to accomplish", etc.
Those kinds of questions just bog things down for me. At least with an action game you can mostly plan around what you can do alone and not also what your opponent can do in response.
Given the inherent complexity and options for deck design in MtG, that's not really an issue except in some versions of the competitive meta. It's a bigger issue in something like YGO, I would imagine, where a lack of resource management leads to universal staples and larger archetypes. ---