As oksewglad, I also like to have my tools at hand. I often have several of the same item located in different spots where I would want to use it, such as a seam gauge and scissors in the drawer by the sewing machine, on the shelf near the ironing board, and by my cutting table. Cute coffee cups that friends give me but that I don't want to use for coffee, often end up holding sewing supplies. I've always had a stack of drawers next to my sewing machine to hold threads, needles, scissors, etc.
Good luck with your organization!