Eclipse C++ Ide for Arduino 2.0 and eeprom.h (no such file or directory)
I'm sorry but it's quite difficult to understand what you are asking. Are you saying you are trying to write some code to write to an EEPROM and you can't find eeprom.h?

1,000 lines isn't a big enough program to cause issues unless there is a problem with your IDE. This file should be included from you main file. If you were using the Arduino IDE then there is a feature to include the library and it adds the #include statement for you.

I don't know what operating system you are using, you didn't say but have you searched for the file? Does it exist? Have you got the correct case for the filename (doesn't matter on Windows)? I think it is called EEPROM.h, maybe changing the name in the include statement will help.

What can't find the file, Eclipse or the compiler? If it's your IDE it shouldn't matter.

Have you got an EEPROM library and can you build and run the examples?

I don't know if this version of Eclipse and the plugin is recent or not, it's possible that the EEPROM library is not supported on this version. You would need to research that. When you encounter problems with third-party tools, it is usually best to revert to the Arduino IDE and check that the tool is functioning correctly.