diff --git a/appvm/qubes.rules b/appvm/qubes.rules
index e3fc50e..5b3a502 100644
--- a/appvm/qubes.rules
+++ b/appvm/qubes.rules
@@ -1 +1 @@
-SUBSYSTEM=="block", KERNEL=="xvdh", ACTION=="add", RUN+="/usr/bin/qubes_add_pendrive_script"
+SUBSYSTEM=="block", KERNEL=="xvdh", ACTION=="add", RUN+="/usr/lib/qubes/qubes_add_pendrive_script"
diff --git a/appvm/qubes_add_pendrive_script.c b/appvm/qubes_add_pendrive_script.c
index 41823ae..bb70861 100644
--- a/appvm/qubes_add_pendrive_script.c
+++ b/appvm/qubes_add_pendrive_script.c
@@ -189,7 +189,7 @@ void dvm_transaction_request(char *seq, struct xs_handle *xs)
 	if (stat_pre.st_mtime == stat_post.st_mtime)
 		suicide(xs);
 	xs_daemon_close(xs);
-	execl("/usr/bin/qvm-dvm-transfer", "qvm-dvm-transfer", src_vm,
+	execl("/usr/lib/qubes/qvm-dvm-transfer", "qvm-dvm-transfer", src_vm,
 	      filename, seq, NULL);
 	syslog(LOG_DAEMON | LOG_ERR, "execl qvm-dvm-transfer");
 	suicide(xs);
diff --git a/appvm/qvm-copy-to-vm b/appvm/qvm-copy-to-vm
index def32d7..1af03ec 100755
--- a/appvm/qvm-copy-to-vm
+++ b/appvm/qvm-copy-to-vm
@@ -24,7 +24,7 @@ if [ $# -lt 2 ] ; then
 	echo usage: $0 'vmname file [file]*'
 	exit 1
 fi
-qubes_penctl new || exit 1
+/usr/lib/qubes/qubes_penctl new || exit 1
 echo -n Waiting for the Qubes virtual pendrive
 while ! [ -e /dev/xvdg ] ; do
 	echo -n .
@@ -37,4 +37,4 @@ shift
 cp -v -a "$@" /mnt/outgoing
 #sometimes Dolphin lags a bit
 umount /mnt/outgoing || (sleep 1; umount /mnt/outgoing) || exit 1
-qubes_penctl send $VMNAME || exit 1
+/usr/lib/qubes/qubes_penctl send $VMNAME || exit 1
diff --git a/appvm/qvm-copy.desktop b/appvm/qvm-copy.desktop
index 6d7ebc6..5795eb6 100644
--- a/appvm/qvm-copy.desktop
+++ b/appvm/qvm-copy.desktop
@@ -4,7 +4,7 @@ Type=Service
 X-KDE-ServiceTypes=KonqPopupMenu/Plugin,inode/directory,all/allfiles
 
 [Desktop Action QvmCopy]
-Exec=/usr/bin/qvm-copy-to-vm.kde %U
+Exec=/usr/lib/qubes/qvm-copy-to-vm.kde %U
 Icon=kget
 Name=Send To VM
 
diff --git a/common/qubes_nmhook b/common/qubes_nmhook
index d06cd57..b9028de 100755
--- a/common/qubes_nmhook
+++ b/common/qubes_nmhook
@@ -1,2 +1,2 @@
 #!/bin/sh
-/usr/bin/qubes_setup_dnat_to_ns
+/usr/lib/qubes/qubes_setup_dnat_to_ns
diff --git a/common/qubes_setup_dnat_to_ns b/common/qubes_setup_dnat_to_ns
index e484191..67a1b90 100755
--- a/common/qubes_setup_dnat_to_ns
+++ b/common/qubes_setup_dnat_to_ns
@@ -10,7 +10,7 @@ addrule()
         fi
 }
 export PATH=$PATH:/sbin:/bin
-source /var/run/qubes_ns
+source /var/run/qubes/qubes_ns
 if [ "X"$NS1 = "X" ] ; then exit ; fi
 iptables -t nat -F PREROUTING
 FIRSTONE=yes
diff --git a/netvm/qubes_core b/netvm/qubes_core
index 4be4f4c..aebf4d7 100755
--- a/netvm/qubes_core
+++ b/netvm/qubes_core
@@ -28,9 +28,9 @@ start()
     secondary_dns=$(/usr/bin/xenstore-read qubes_netvm_secondary_dns)
     ifconfig br0 $gateway netmask $netmask up
     ifconfig br0:1 $secondary_dns netmask $netmask
-    echo "NS1=$gateway" > /var/run/qubes_ns
-    echo "NS2=$secondary_dns" >> /var/run/qubes_ns
-    qubes_setup_dnat_to_ns
+    echo "NS1=$gateway" > /var/run/qubes/qubes_ns
+    echo "NS2=$secondary_dns" >> /var/run/qubes/qubes_ns
+    /usr/lib/qubes/qubes_setup_dnat_to_ns
     echo "1" > /proc/sys/net/ipv4/ip_forward
 #now no need for dnsmasq
 #    dnsmasq --listen-address $gateway --bind-interfaces
diff --git a/rpm_spec/core-appvm.spec b/rpm_spec/core-appvm.spec
index 143aa3d..a4444f0 100644
--- a/rpm_spec/core-appvm.spec
+++ b/rpm_spec/core-appvm.spec
@@ -61,10 +61,10 @@ mkdir -p $RPM_BUILD_ROOT/etc/init.d
 cp qubes_core $RPM_BUILD_ROOT/etc/init.d/
 mkdir -p $RPM_BUILD_ROOT/var/lib/qubes
 mkdir -p $RPM_BUILD_ROOT/usr/bin
-cp qubes_timestamp qubes_add_pendrive_script qubes_penctl \
-	qvm-copy-to-vm qvm-copy-to-vm.kde \
-	qvm-open-in-dvm $RPM_BUILD_ROOT/usr/bin
-ln -s qvm-open-in-dvm $RPM_BUILD_ROOT/usr/bin/qvm-dvm-transfer 
+cp qubes_timestamp qvm-copy-to-vm qvm-open-in-dvm $RPM_BUILD_ROOT/usr/bin
+mkdir -p $RPM_BUILD_ROOT/usr/lib/qubes
+cp qubes_add_pendrive_script qubes_penctl qvm-copy-to-vm.kde $RPM_BUILD_ROOT/usr/lib/qubes
+ln -s /usr/bin/qvm-open-in-dvm $RPM_BUILD_ROOT/usr/lib/qubes/qvm-dvm-transfer 
 mkdir -p $RPM_BUILD_ROOT/%{kde_service_dir}
 cp qvm-copy.desktop qvm-dvm.desktop $RPM_BUILD_ROOT/%{kde_service_dir}
 mkdir -p $RPM_BUILD_ROOT/etc/udev/rules.d
@@ -184,13 +184,13 @@ rm -rf $RPM_BUILD_ROOT
 /etc/fstab
 /etc/init.d/qubes_core
 /usr/bin/qvm-copy-to-vm
-/usr/bin/qvm-copy-to-vm.kde
+/usr/lib/qubes/qvm-copy-to-vm.kde
 %attr(4755,root,root) /usr/bin/qvm-open-in-dvm
-/usr/bin/qvm-dvm-transfer
+/usr/lib/qubes/qvm-dvm-transfer
 %{kde_service_dir}/qvm-copy.desktop
 %{kde_service_dir}/qvm-dvm.desktop
-%attr(4755,root,root) /usr/bin/qubes_penctl
-/usr/bin/qubes_add_pendrive_script
+%attr(4755,root,root) /usr/lib/qubes/qubes_penctl
+/usr/lib/qubes/qubes_add_pendrive_script
 /etc/udev/rules.d/qubes.rules
 /etc/sysconfig/iptables
 /var/lib/qubes
diff --git a/rpm_spec/core-netvm.spec b/rpm_spec/core-netvm.spec
index 4081dbb..5d130e1 100644
--- a/rpm_spec/core-netvm.spec
+++ b/rpm_spec/core-netvm.spec
@@ -59,10 +59,10 @@ cp fstab $RPM_BUILD_ROOT/etc/fstab
 mkdir -p $RPM_BUILD_ROOT/etc/init.d
 cp qubes_core $RPM_BUILD_ROOT/etc/init.d/
 mkdir -p $RPM_BUILD_ROOT/var/lib/qubes
-mkdir -p $RPM_BUILD_ROOT/usr/bin
-cp ../common/qubes_setup_dnat_to_ns $RPM_BUILD_ROOT/usr/bin
+mkdir -p $RPM_BUILD_ROOT/usr/lib/qubes
+cp ../common/qubes_setup_dnat_to_ns $RPM_BUILD_ROOT/usr/lib/qubes
 mkdir -p $RPM_BUILD_ROOT/etc/dhclient.d
-ln -s /usr/bin/qubes_setup_dnat_to_ns $RPM_BUILD_ROOT/etc/dhclient.d/qubes_setup_dnat_to_ns.sh 
+ln -s /usr/lib/qubes/qubes_setup_dnat_to_ns $RPM_BUILD_ROOT/etc/dhclient.d/qubes_setup_dnat_to_ns.sh 
 mkdir -p $RPM_BUILD_ROOT/etc/NetworkManager/dispatcher.d/
 cp ../common/qubes_nmhook $RPM_BUILD_ROOT/etc/NetworkManager/dispatcher.d/
 mkdir -p $RPM_BUILD_ROOT/etc/yum.repos.d
@@ -71,6 +71,7 @@ mkdir -p $RPM_BUILD_ROOT/sbin
 cp ../common/qubes_serial_login $RPM_BUILD_ROOT/sbin
 mkdir -p $RPM_BUILD_ROOT/etc
 cp ../common/serial.conf $RPM_BUILD_ROOT/var/lib/qubes/
+mkdir -p $RPM_BUILD_ROOT/var/run/qubes
 
 %triggerin -- initscripts
 cp /var/lib/qubes/serial.conf /etc/init/serial.conf
@@ -168,8 +169,9 @@ rm -rf $RPM_BUILD_ROOT
 /etc/sysconfig/iptables
 /etc/init.d/qubes_core
 /var/lib/qubes
-/usr/bin/qubes_setup_dnat_to_ns
+/usr/lib/qubes/qubes_setup_dnat_to_ns
 /etc/dhclient.d/qubes_setup_dnat_to_ns.sh
 /etc/NetworkManager/dispatcher.d/qubes_nmhook
 /etc/yum.repos.d/qubes.repo
 /sbin/qubes_serial_login
+%dir /var/run/qubes