File manager not overwrite files

it bug or not i don’t know, i bought some script and there is an update in the script, when i unzip the file it’s not overwite ,
example: there is a folder "/bin " on public_html/, so i upload the the folder “bin.zip” and extrack, it’s not overwrite all file on folder “bin”, extracted on “/bin/bin/” hard to me for move all funziped files,