The difference using some of the shielding material should be noticeable - people have used āaudiophileā RFI absorbers and noticed the results. In general the biggest digital offenders are the biggest chips 
I donāt want to take the time to wade thru all of the options and make specific recommendations, but here are the best places to try and the frequency ranges of interest:
In Sr: The PIC/control processor/display processor on the back of the display board is the worst offender in the box. (80MHz plus all sort of impulses reading flash and ram, etc.) In the Jr the control processor is the one that says āPIC 32ā.
Probably 2nd most offender is the Bridge (high clock rate - 100s of MHz and lots of current.) Itās the chip on the little daughter card on the Bridge II or on the little daughter card in the Jr next to the Ethernet connector.)
I donāt know which of the following causes the least or most RFI/EMI:
The USB processor is next to the USB connector, a little smaller and says XMOS. (About 400MHz + harmonics)
In the Jr the Ethernet PHY is near the network connector and says āASIXā About 125MHz and probably not the worst offender.
The FPGA says āSpartan 6ā. (some 22.6MHz, a little less 56MHz and a lot of 170MH - the number vary a little from release to release.)
The two small inductors near the USB chip might be a place to try if you can make sure that nothing can get shorted - they are part of the XMOS chipās power supply so they have a lot of changing current.
In the DS Sr if your digital board still has rectangular epoxy PCB material just over where the audio transformers are, adding some magnetic shielding to the BACK of the digital board might be useful. Make sure to not short anything. There are no traces in those rectangle on any lower of the board.
Thereās probably no reason to shield any of the other bigger chips (mostly regulators and higher current diodes.) But it shouldnāt hurt.
On the analog board there are only two places Iād try anything, both just under the ribbon cable: the oscillator module (22.6MHz) and the big 28 pin digital switch (which says āMC100Eā¦FNGā - 11.3MHz.) Some people have reported good things when shielding them and others the opposite.
You might also find that wrapping some of the absorbing material around your power cord and/or you interconnects (especially digital interconnects) may make a noticeable difference, perhaps good, perhaps bad depending on the rest of your system.