Ok I believe I've solved my problem with the PCB.
I had a bit of 60Hz hum on my circuit, not much but since the circuit is designed to completely reject common mode noise I assumed that something was wrong and that separate voltage references could solve it.
Now I connected all the piezos to the PCB in stead of just one and the 60hz hum disappeared.
For some reason this solves the problem and the noise floor looks like on my breadboard but much less noise so better than expected.
I'm not sure why this happens. Can someone explain it to me perhaps?
Here is the original circuit (only two piezo circuits are shown but there are 7):

The problem with piezo conditioning is they produce maybe 90V or so. I used a 700 ohm resistor to ground on both the positive and negative cable to lower the voltage before entering the charge amplifier (on the updated circuit I used two 390pF capacitors in series in stead to avoid the connection to ground.
As you can see the charge amplifier has a 1meg/10nF on both the inverting and non inverting inputs (highlighted in blue) to get common mode rejection. The 700 ohm and the 70kOhm resistors form a band pass filter with the 10nF capacitors to give me a nice clean signal.
The 1meg resistors need to be matched to get the best common mode rejection so I used 0.1% tolerance. However I noticed that in the circuit the 1meg resistor on the non inverting input is connected in parrallel to the 1meg resistors from the other piezo circuits through the ground plane and the voltage reference. I assumed that this made the circuits unbalanced.
That's why I wanted a separate reference for all the circuits.
However now when I connected all piezos the noise sort of cancelled out.
I have not tested the PCB yet with my application and I will see if they respond as they did on the breadboard with only one circuit.