You've got the right idea behind your assessment, but the pieces in play are a little off.
Federal laws (Obamacare/ACA) and federal entities (EPA) are created by Congress.
The executive branch (President), can issue executive orders, but they are limited to authority granted by Congress and the constitution.
The judicial branch is there to verify that the other two branches are staying within their constitutional authority.
Constitutional Amendments are difficult to enact, but that is intentional. Amendments limit government at all levels. Congress can't make any law, and the executive branch can't issue any order that conflicts with the constitution. The only thing you can do is amend the constitution again.
The problem is that Congress has become a gridlocked mess while also offloading a lot of it's authority to government agencies acting on it's behalf under the executive branch. Effectively increasing the scope and power of the presidency and by extension the reach of executive orders. This has also pushed the judicial branch into a much more active role than it was designed for.
Edit: It's also one of the contributing factors in the heated elections in the USA. As the power of the presidency grows, people become more invested in seeing their person in charge.