The high biodiversity and physical heterogeneity of the Klamath-Siskiyou Ec
oregion of the Pacific Northwest (USA) suggest the need for an ambitious an
d multifaceted approach to conservation research and planning. We developed
a process of reserve selection and design that proceeds along three parall
el tracks: (1) protection of special elements, such as rare species hotspot
s, old-growth forests, and key watersheds; (2) representation of physical a
nd vegetative habitat types; and (5) maintenance of viable populations of f
ocal species (e.g., fisher, Martes pennanti Erxleben). Each of these comple
mentary research tracks identified important conservation opportunities in
the region. In combination they provide a basis for a reserve design and ma
nagement plan that meets conservation goals better than the existing manage
ment situation established by the federal Northwest Forest Plan. Our propos
ed Phase I reserve design begins with protection of roadless areas on publi
c lands that score high under the criteria of our three-track approach. A r
elatively small area of additional public and private land is necessary to
provide habitat contiguity among roadless areas and capture remaining biolo
gical hotspots. This design would place approximately 34% of the region int
o the strictest category of protected areas, compared to 13% under current
management, and would place an additional 19% of the region into moderate p
rotection. A second, proposed phase of conservation would include protectio
n of additional private lands to meet representation objectives. Also inclu
ded in Phase II would be protection of linkages to other regions, necessary
for long-term persistence of wide-ranging animals such as large carnivores
(e.g., gray wolf, Canis lupus L.), which are being considered for reintrod
uction to the region. When implemented, Phase II would bring approximately
60-65% of the region into strict and moderate protection. Linkage design an
d ecological management (e.g., fire regimes) are among the critical topics
for further research.