The problem seems to be resolved in Jaunty:

r...@debpkg:/home/rzajic# traceroute -V
Modern traceroute for Linux, version 2.0.12, Nov  6 2008
Copyright (c) 2008  Dmitry Butskoy,   License: GPL v2 or any later

r...@debpkg:/home/rzajic# traceroute -I nix.cz
traceroute to nix.cz (195.47.235.3), 30 hops max, 60 byte packets
 1  ns.dalunet.lan (10.160.0.1)  1.202 ms  1.159 ms  1.120 ms
 2  sys0--sys8.dalunet.lan (10.191.255.9)  1.086 ms  1.057 ms  1.018 ms
 3  bbr2--dalunet.dialtelecom.cz (212.80.64.181)  3.263 ms  3.238 ms  3.326 ms
 4  82.119.246.9 (82.119.246.9)  3.171 ms  3.257 ms  3.223 ms
 5  prg-asbr2-kkk-ten1-3.dialtelecom.cz (82.119.246.26)  5.316 ms  5.291 ms  
5.250 ms
 6  * * *
 7  nixcz2-cust.tr3.prg.vol.cz (195.122.209.78)  5.026 ms  4.615 ms  4.566 ms
 8  info.nix.cz (195.47.235.3)  4.523 ms  4.704 ms  4.663 ms

r...@debpkg:/home/rzajic# traceroute -6 -I nix.cz
traceroute to nix.cz (2a02:38::1001), 30 hops max, 80 byte packets
 1  bb-pl-aval-eth1.ip6.dalunet.cz (2001:4de8:deaf:8000::1)  0.377 ms  0.338 ms 
 0.306 ms
 2  bb-pl-gate-eth1.ip6.dalunet.cz (2001:4de8:deaf:ffff::1)  0.454 ms  1.383 ms 
 1.354 ms
 3  2001:4de8:b0ba:deaf::1 (2001:4de8:b0ba:deaf::1)  3.530 ms  3.499 ms  3.467 
ms
 4  76sit-te2-4.dialtelecom.cz (2001:4de8:d1a1:1111:d::2)  3.427 ms  3.354 ms  
3.323 ms
 5  2001:4de8:d1a1:1111:20::2 (2001:4de8:d1a1:1111:20::2)  4.224 ms  4.195 ms  
4.164 ms
 6  2001:4de8:d1a1:1111:21::1 (2001:4de8:d1a1:1111:21::1)  164.187 ms  163.356 
ms  163.785 ms
 7  2001:4de8:b0ba:6706:2:0:6:706 (2001:4de8:b0ba:6706:2:0:6:706)  3.796 ms  
3.260 ms  3.217 ms
 8  v6-nixcz-cust.tr1.prg2.ipv6.vol.cz (2001:1508:1:18::2)  3.176 ms  3.234 ms  
4.145 ms
 9  info.nix.cz (2a02:38::1001)  4.106 ms  3.368 ms  3.325 ms

-- 
ICMP traceroute does not work properly in Hardy
https://bugs.launchpad.net/bugs/269749
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