What is the best 5k-plus Preamp with balanced outs and Phono stage?

I second the EAR-Yoshino & AR SP-20. Also try to audition the Macintosh C2600 - it is a very capable tube preamp with an exceptional full feature phono stage and a warm yet detailed sound.

Going with separate phono stage might not necessarily offer better value due to costs of a separate chassis and power supply, but I would still suggest it because separating those will often give better sound quality. Better phono stages often have external power supplies to keep the low level signal away from the PS, reducing noise, more impactful with phono signals than higher line level signals. 

If we are casting votes, I love the Backert preamps, know the principals well, and can't say enough good things about their dedication to helping you get the best sound for your money. They are no nonsense guys with a professional musician doing most of their voicing/listening. They will spend hundred of hours comparing the sound of every damn capacitor, piece of wire, etc. to get the most out of their designs. The UI and clean design of their gear is appeal IMHO too, especially the top access to tubes, handy for tube rollers. Cheers,
Spencer

The EAR-Yoshino 868 is also available as a line-stage only. model designation 868L. Two pair balanced/XLR outputs (via transformers), two pair unbalanced outputs on RCA's, one pair tape outputs on RCA's. 17dB gain provided by a pair of 7DJ8 tubes.

I use an Atmasphere MP-3 with my Ayre MX-R (non twenty) with excellent results.
I'm still waiting for a non twenty KX-R to come on the market.
Bob

+1 on the Atma-Sphere MP-3