I had to create a script to manually "mv" each entry.

I used "ls -1 > filelist" to create a one line listing of each entry, then used a text editor to add in the "mv " at the front of each line, then duplicate each filename and substitute the correct run level (taken off a known good system)

This is my rc0.d file:

mv K01bluetooth            K74bluetooth
mv K01boinc-client        K20boinc-client
mv K01hddtemp            K20hddtemp
mv K01openvpn            K80openvpn
mv K01pcscd            K20pcscd
mv K01policycoreutils        K99policycoreutils
mv K01postfix            K20postfix
mv K01samba4            K20samba4
mv K01xrdp            K20xrdp
mv K02atieventsd        K31atieventsd
mv K05clamav-freshclam        K20clamav-freshclam
mv K08vmware            K08vmware
mv S01halt            S90halt
mv S01networking        S35networking
mv S01sendsigs            S20sendsigs
mv S01umountfs            S40umountfs
mv S01umountnfs.sh        S31umountnfs.sh
mv S01umountroot        S60umountroot
mv S01unattended-upgrades    S10unattended-upgrades
mv S02urandom            S30urandom
mv S02wpa-ifupdown        S15wpa-ifupdown

This is my rc2.d file:

mv S01binfmt-support        S90binfmt-support
mv S01boinc-client        S20boinc-client
mv S01fancontrol        S20fancontrol
mv S01xrdp            S20xrdp
mv S04openvpn            S16openvpn
mv S05acpi-support        S99acpi-support
mv S05atieventsd        S31atieventsd
mv S05clamav-freshclam        S20clamav-freshclam
mv S05cups            S50cups
mv S05hddtemp            S20hddtemp
mv S05ntp            S23ntp
mv S05pcscd            S50pcscd
mv S05policycoreutils        S00policycoreutils
mv S05pulseaudio        S50pulseaudio
mv S05rsync            S50rsync
mv S05smartmontools        S20smartmontools
mv S06bluetooth            S25bluetooth
mv S06postfix            S20postfix
mv S06powernowd            S20powernowd
mv S06powernowd.early        S10powernowd.early
mv S06samba4            S20samba4
mv S19vmware            S19vmware
mv S20kerneloops        S20kerneloops
mv S20speech-dispatcher        S20speech-dispatcher
mv S50vmware-USBArbitrator    S50vmware-USBArbitrator
mv S70dns-clean            S70dns-clean
mv S70pppd-dns            S70pppd-dns
mv S99grub-common        S99grub-common
mv S99ondemand            S99ondemand
mv S99rc.local            S99rc.local

This is my rc6.d file:

mv K01bluetooth            K74bluetooth
mv K01boinc-client        K20boinc-client
mv K01hddtemp            K20hddtemp
mv K01openvpn            K80openvpn
mv K01pcscd            K50pcscd
mv K01policycoreutils        K99policycoreutils
mv K01postfix            K20postfix
mv K01samba4            K20samba4
mv K01xrdp            K20xrdp
mv K02atieventsd        K31atieventsd
mv K05clamav-freshclam        K20clamav-freshclam
mv K08vmware            K08vmware
mv S01reboot            S90reboot
mv S01networking        S35networking
mv S01sendsigs            S20sendsigs
mv S01umountfs            S40umountfs
mv S01umountnfs.sh        S31umountnfs.sh
mv S01umountroot        S60umountroot
mv S01unattended-upgrades    S10unattended-upgrades
mv S02urandom            S30urandom
mv S02wpa-ifupdown        S15wpa-ifupdown

This is my rcS.d file:

mv S01apparmor        S37apparmor
mv S01brltty        S25brltty
mv S01lm-sensors    S47lm-sensors
mv S01setkey        S37setkey
mv S01x11-common    S70x11-common
mv S02hdparm        S02hdparm
mv S02pcmciautils    S13pcmciautils
mv S02urandom        S55urandom
mv S05policycoreutils    S00policycoreutils

Check the actual numbers on your own system if you try to use them.