A partial inventory follows, with the plant’s botanical name, common name, date collected, and habitat found in (using Muir’s original notes, written on a slip of paper with each sample). Duplicate and triplicate samples are indicated with the notation “2x” and "3x"; missing information is indicated with the “---” notation.

The complete, inventoried herbarium is now part of the archives at the John Muir National Historic Site, Martinez, California.

Other samples in the herbarium were collected in Canada and are not included here; some samples do not indicate either location and are recorded at the bottom of the chart.

Botanical name	Common name (if noted)	Date collected (if noted)	Where collected (if noted)
Actaea spicata (var. alba)	Baneberry	1867	Woods
Benzoin odoriferum	Spice bush (wood)	---	---
Berberis bulgaris	Barberry	May 24, 1867	---
Carex ampullaceae	--- [sedge]	May 30, 1867	Pond
Carex bromoides	--- [sedge]	June 2, 1867	Swamp
Carex Careyana	--- [sedge]	1867	Sandy, moist hillside
Carex cephalophora	--- [sedge]	June, 1867	Woods
Carex formosa	--- [sedge]	June, 1867	---
Carex gracillima	--- [sedge]	June, 1865 [sic]	---
Carex granularis	--- [sedge]	May 30, 1867	---
Carex novae-angliae	--- [sedge]	1867	Hillside
Carex oligocarpa (2x)	--- [sedge]	--- May 30, 1867	--- Woods
Carex polytrichoides	--- [sedge]	June, 1867	Marsh
Carex pubescens	--- [sedge]	May 25, 1867	Woods
Carex rosea	--- [sedge]	May 24, 1867	Woods
Carex scoparia	--- [sedge]	June, 1867	---
Carex shortiana (2x)	--- [sedge]	May 30, 1867	Field
Carex sparganioides	--- [sedge]	May 24, 1867	Woods
Carex Steudelli	--- [sedge]	1867	Moist hillside
Carex stricta	--- [sedge]	June 20, 1867	---
Carex trichocarpa	--- [sedge]	1867	Swamp
Carex Tuckermani	--- [sedge]	---	---
Carya microcarpa	Hickory	June, 1867	---
Collinsia vera	Innocence	---	---
Delfinium tricorne	Dwarf larkspur	1867	---
Geum vernum	Avens	1867	Woods
Gymnocladus Canadensis	Coffee-nut tree	June, 1867	---
Heuchera Americana (2x)	Alum root	June, 1867	Bank
Hydrastis Canadensis	Orange root	1867	Woods
Hypnum currifolium	---	May 25, 1867	Log
Jeffersonia diphylla (2x)	Twin leaf	June, 1867	Woods
Liriodendron tulipfera	Tulip tree	June, 1867	---
Luzula campestris	Wood rush	June, 1867	Woods
Morus rubra	Red mulberry	1867	---
Negundo aceroides	Box elder/ ash maple	1867	---
Phacelia purshii	Water leaf	1867	Woods
Phlox divaricata	Phlox	1867	---
Physcomitrium pyriforma	Club moss	May 28, 1867	On ground
Polemonium reptans (3x)	Jacob's ladder	May, 1867	Woods
Polytrichum formosum	---	June, 1867	Woods
Ranunculus revurvatias	Buttercups	1867	---
Saxifraga Pennsylvanica	Saxifrage	June, 1867	Swamp
Sedum ternatum	Stone crop	1867	---
Specimens with no label identifying Indiana or Canada (in addition to seven specimens that have no species or common name label from Muir)
Arisaema Dracontium	Dragon root	---	---
Carex laxiflora	--- [sedge]	---	---
Carex sparganioides	--- [sedge]	---	---
Carex stipata	--- [sedge]	---	---
Ceratodon purpurens	Club moss	---	On decayed wood
Cornus grandiflora (2x)	Dogwood	---	Woods
Fersidins taxifolia	Club moss	---	---
Hydrophyllum apdendiculatum	Water leaf	---	---
Osmunda regalis	Flowering fern	---	---
Salix alba	Willow, osier	---	---
Trientalis Americana	Chickweed, wintergreen	---	---
Valeriana pancifolio	Valerian	---	---
Viburum acerifolium	Dockmackie	---	---
---	Club moss (2x)	---	---