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You can create a separate partition for /var/www or whichever directory your apache files are in on the external, create an entry in the /etc/fstab file for that partition and then set the Document Root in the apache configuration file to it. You can run apache from an internal this way or put it on the external. I'm not really sure what you see specifically as a problem?
I run some sites on a Pi, I use nginx. It's quite small. Maybe that will not help, but maybe it will. I was serving some files off of a usb thumbdrive for a while; I mounted the thumbdrive at /storage, and added that path to my server conf file. Worked out fine.