10k files inside one folder is not a problem on Ext4. It should have a default dir_index parameter that indexes the contents of directories using a structure of type btree to prevent performance problems.
To summarize, if you are not creating millions of files or using ext2 / ext3, you do not have to worry about system or FS performance issues.
At the same time, shell tools and commands do not like to be called with a large number of files as a parameter (for example, rm * ) and may return an error message saying something like "too many arguments". Look at this answer for what happens next.
mbarthelemy
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