1. Now you have .flac and .cue file and want Audio CD. First — convert .flac file to wav. You can make it easy with great player foobar2000. choose Convert → Convert to Same Directory from the context menu, when open. Converting functionality requires the Converter component to be installed ('Optional Features → Tools → Converter' during installation). You also may use Flac Frontend (put it into C:\Program Files\Exact Audio Copy\Flac folder and run)

2. After .wav extraction just open .cue file in Notepad, change .flac to .wav and save changes.

3. Run EAC and coose from top menu Tools → Write CD

4. In opened Layout Editor choose from top menu File → Load CUE Sheet... and select your .cue file.

5. Choose from top menu CD-R → Write CD... and disc recording starts.

See also How to rip CD image to FLAC manual