I use Zim, which is wiki softmare for linux(and probably other platforms), for my overarching goals and long term things, as well as a personal journal, which it has a slick mode for where it automatically has dates as categories, it is very easy to organize and format, would recommend, also it just saves all your shit in text files, so if zim ever went south, easy enough to switch.
I use Loop Habits for android for daily stuff, meditation, yoga, brushing teeth, etc.
And for things to do every few days, such as running. Very useful, it makes graphs and has an algorithm that gives you a habit percentage for the health of your habit.
Has helped me make a lot of good habits, which if you don't think are important, I recommend the book Way to Willpower, he goes into detail on habits and how they shape everything we do and who we are at our core, basically.
I use Sealnote for android for quick notes. It encrypts them, so makes me feel a bit better about botnet phone working against me. Good program, though.
Hopefully these programs can help you gather your thoughts, but remember, the onus is always on you, if you don't actual use the tools or barely use them and use them wrong, they can't do anything.
You can only help yourself, these are just tools to maybe make it easier, if you feel them hindering you after giving them a fair shot, just toss them.