With my Ceriatone/Marsh 50wOTS In front: Area 51 Wah, Keith Hilton low profile active volume pedal.  In the loop: TC electronics Nova system pedal.  The tremolo setting in that pedal is the worst sounding trem I have ever heard.  It works okay within the band mix, but by itself it sounds like...I won't say it!. 

With my Ceriatone 50w HRM, the same except the TC unit goes in and out of a Ceriatone C-lator, which in turn goes in and out of the amp's fx loop.   I don't do the long cable trick for the C-Lator.

Lovepedal Burning E6, Zendrive and Lovepedal AMP11 in front of my OTS 50W, Suhr Mini Mix with Boss RV and Boss Delay in loop, into Mesa cab with EV speaker and Motion Sound SR-112 Leslie with Weber JBL clone.

Bert

Actually Long cables is not what your supposed to use. You should b using RG-400 high'er pF (braided conductor) cables. They're used to Roll off highs when using a D-lator and huge bright cap on the Master Vol

One night I had to play without my pedals - straight into the amp.
I loved it!  Had a Dr. Z Maz Jr at the time.  I decided to get rid of all my OD pedals.
(Xotic RC, AC and BB - great pedals) and since the Z didn't have enough gain, started searching for a different amp.  Thats how I came upon the D-style.

For efx, I do the Larry Carlton thing - mic the amp -> efx -> another amp for the return.
My guitar goes straight to the amp.  Even as few as 3 or 4 true bypass pedals suck a lot of tone and responsiveness.  Even when they're not on - just in the chain.
When I plugged straight in - the guitar really 'came alive'.  When I need to tune, I pull the cable out of the amp and plug into the tuner.  Some efx, like wah, pretty much HAVE to be in the chain, but the less, the better.   Its not even the 'tone' that gets sucked out so much as the 'life'.

I noticed a couple of simple riffs I play that never sounded right until I ditched the pedals.
Now, all the nuances REALLY come through and inspire my playing in a way the OD pedals never could.

Kicked all my drives off my board (KOT, TIM, modded DS-1, RC booster).  Kept the following chain:

Turbo Tuner (best tuner) --> Clean Boost for buffering --> Teese RMC-3 wah --> Java Boost (Germanium treble booster.  Get one.  With the Bluesmaster 100w, it's golden) --> Captain Coconut 2 --> Digitech Hardwire DL-8 --> amp.  The vibe unit on the Captain Coconut and the delay are run through the C-lator.  With the fuzz on the CC and the Java boost, I can cover almost any sound I need.  The great thing about the latter is that it has a toggle switch to set the pedal for full boost, treble boost, or mid boost.  Pretty rad.