Sounds like the issue is known and acknowledged enough that further
proof of it's existence isn't needed but just for the record the same
thing happens to me.

Desktop machine in my case which I don't believe was originally using nm. It 
definitely always had a static ip, (I occasionally use it to reach the machine 
from outside.)
Unfortunately as this is just a desktop I pay very little attention to it and I 
don't remember the exact history and can't say exactly what I did originally 
and what I did subsequently and what changed when it wasn't supposed to over 
the last couple years.
I can't say for sure that I didn't use nm to configure the static ip.
I just know that since the in-place upgrade, nm wipes out resolv.conf every 
boot and the box can not resolve names until I rewrite it, and for some reason 
the nic was renamed from eth1 to eth2 and there is no eth 1 or 0. nm displays 
two connections "ifupdown (eth1)" , and "Auto eth2". eth0 is not displayed 
anywhere but references to it still exist in config files. I'm pretty sure eth0 
was a physically different nic that was replaced long ago. No hardware change 
of any sort happened before, during or after the dist upgrade.

Physically there is only one nic
ifconfig -a shows only eth2, lo, and vboxnet0

/etc/network has:
interfaces: 
---tof---
# This file describes the network interfaces available on your system
# and how to activate them. For more information, see interfaces(5).

# The loopback network interface
auto lo
iface lo inet loopback

# The primary network interface
auto eth0
#iface eth0 inet dhcp

iface eth1 inet static
address 10.0.0.80
netmask 255.255.255.0
gateway 10.0.0.208

auto eth1
---eof---

interfaces.bak-0
---tof---
# This file describes the network interfaces available on your system
# and how to activate them. For more information, see interfaces(5).

# The loopback network interface
auto lo
iface lo inet loopback

# The primary network interface
auto eth0
iface eth0 inet dhcp
---eof---

I never manually edited those files. I didn't even know that's where ubuntu 
stored such things until reading this thread.
(I only use ubuntu on a few desks and portables, my servers are all opensuse, 
so when it comes to the types of machines I use ubuntu on, I am pretty much 
like any illiterate user, or at least I _want_ to be.)

Digressing but while writing this, I disabled networking from the gnome network 
manager taskbar applet, and and now, for the life of me I can not figure out 
how to re-enable it (without going behind the scenes and manually running ip or 
ifconfig & route as root)
System > Preferences > Network Connections displays the connections (a bogus 
eth1 and the new eth2) and lets me edit the ip settings, but does not activate 
the connection, even when toggling the connect-automatically box.
What is a regular user supposed to do, reboot? Logout of gnome & back in? Never 
ever touch that disable button that's sitting there so easy to press? Why 
doesn't the thing that looks like it's supposed to operate the network 
connections do so? Or if it actually does, then why couldn't a person who knows 
how to do it the "hard" way with ip/ifconfig/route (in any number of unix and 
unix-like OS's btw) figure it out? That has to be one of those hundred 
annoyances...

-- 
[karmic] n-m overwrites /etc/resolv.conf even when NICs are configured in 
/etc/network/interfaces
https://bugs.launchpad.net/bugs/435618
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