Ah I see, that makes sense. Well then, what I'd do if I were you:
- Configure EAC to rip to a lossless format, for example
WavPack, using APEv2 tags (it won't affect your ripping time, because it encodes much much faster than your drive rips). Refer to
Case's quick tutorial for this.
- Set EAC up to place all files into one folder (use any file naming scheme you want, for example "%N - %T").
- For encoding the files to MP3, use
dBpowerAMP - it will copy the tags from the WavPack files, and you can tell it to use ID3v2 or ID3v1 tags (or both). You will also have to install the
WavPack codec, and I'd recommend copying the v3.90.3
lame_enc.dll over the 3.92 one located in dBpowerAMP\Compression\Lame (beware, any new dBpowerAMP version will overwrite it with the 3.92 DLL again), as it provides potentially higher quality if you use the --alt-preset standard setting.
- Once you've encoded the MP3 files, use the
shell extension I made to rename the MP3 files and sort them into subdirectories. You have to modify some lines slightly for it to work with MP3 files (replace
*.mpc with
*.mp3, remove the replaygain lines, etc.), but I guess you'll figure that out.

Hope this helps a bit. It sounds messy and complicated, but in reality, it's not. The main advantage is that the WavPack files contain tags which can simply be copied to the MP3 files - this is not the case with plain WAV files, so you'd have to mess around with tagging from filename if you ripped to WAV.
I do it similarly myself, and it works like a charm.

QUOTE
Just one more quick thing if I use the command line you posted does it overwrite any of the other settings i.e tick boxes in eac?
I think it's the other way round, at least for the tagging. If you specify ID3v2 tagging in the command line, enabling tagging in EAC will override that and ID3v1 tags will be added additionally, which that command line is trying to avoid.
The other options (bitrate, high quality/low quality, CRC) are ignored anyway if you use the "User Defined Encoder" option (which you should if you're using LAME).