as wonderful as Linux is, it started as a Unix clone and a lot of its initial popularity can be attributed to providing a free version of something that used to cost money.
Blender and Ghidra were started from scratch and are considered top tier in their niches. So I feel a sense of community pride for them more than I do for Linux.
The question is flawed, though, because the best OSS software is obviously Emacs ;)
Blender a clone of other 3d software that cost money?
Blender was commercial software that cost money. After the company went bankrupt, the former CEO and a bunch of Blender users got together and raised enough money to buy out the source code and made it open source.
I don't think Blender can really be called a clone of anything other than in the most superficial sense. Certainly when Blender was first being release it looked and worked like nothing else in the industry, often much to its detriment.
This is a real "daddy or chips" question, because they all do completely different things. Blender possibly best in terms of "compared to an expensive commercial product". Ghidra is incredibly powerful but has a weird look and feel. Linux is undoubtedly the most influential of those three, but if it had never been invented perhaps we'd be using a BSD instead?
"Best" in terms of "achievement by a single programmer (almost)" is Fabrice Bellard's ffmpeg and QEMU.