Hello there,
I have installed latest console version of Debian from eLinux.org. Its uses 
kernel version 4.1.9:
Linux beaglebone 4.1.9-ti-r20 #1 SMP PREEMPT Fri Oct 2 05:35:56 UTC 2015 
armv7l GNU/Linux

I was trying to load BB-UART5 overlay but I failed. I also dont see any 
overlays loaded I thought I would, like eMMC:
root@beaglebone:/sys/devices/platform/bone_capemgr# cat slots
 0: PF----  -1 
 1: PF----  -1 
 2: PF----  -1 
 3: PF----  -1 

When I tried to load the tree i got:
[ 3013.532495] bone_capemgr bone_capemgr: part_number 'BB-UART5', version 
'N/A'
[ 3013.532543] bone_capemgr bone_capemgr: slot #4: override
[ 3013.532561] bone_capemgr bone_capemgr: Using override eeprom data at 
slot 4
[ 3013.532579] bone_capemgr bone_capemgr: slot #4: 'Override Board 
Name,00A0,Override Manuf,BB-UART5'
[ 3013.533110] __of_adjust_tree_phandle_references: Could not find target 
property 'fixup' @/__local_fixups__
[ 3013.548518] bone_capemgr bone_capemgr: slot #4: Failed to resolve tree

And I have compiled the tds before and put the dtbo in /lib/firmware/

Has anything changed in the new kernel regarding dts loading and general 
usage?
I would apreciate all help regarding this topic!

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