Never run an EBOOT from an untrusted source. Always scan via antivirus (yes, malicious files can target PS3s via WebMAN or prepNTFS vulnerabilities) and use known community tools.
Using modified files while signed into the PlayStation Network (PSN) significantly increases the risk of a console or account ban.
folder of a game's directory. Replacing or "downloading" a specific EBOOT.BIN is typically done to apply game mods, bypass firmware restrictions, or enable real-time debugging on jailbroken consoles. ConsoleMods Wiki Understanding EBOOT.BIN