| Machilus japonica Siebold et Zucc. | MAKS1562 |
| Machilus thunbergii Siebold et Zucc. | MAKS1563 |
| Macleaya cordata (Willd.) R. Br. | MAKS0090, MAKS0181 |
| Maclura cochinchinensis (Lour.) Corner var. gerontogea (Siebold et Zucc.) Ohashi | MAKS1655 |
| Maesa japonica (Thunb.) Moritzi | MAKS1132 |
| Magnolia denudata Desr. | MAKS0056 |
| Magnolia liliflora Desr. | MAKS0017, MAKS0021 |
| Magnolia obovata Thunb. | MAKS0057 |
| Magnolia salicifolia (Siebold et Zucc.) Maxim. | MAKS0023 |
| Magnolia sieboldii K. Koch | MAKS0054, MAKS0055 |
| Magnolia stellata (Siebold et Zucc.) Maxim. | MAKS0018, MAKS0019, MAKS0020, MAKS0022 |
| Maianthemum dilatatum (Wood) Nels. et Macbr. | MAKS2368, MAKS2370 |
| Mallotus japonicus (Thunb.) Muell. Arg. | MAKS0615, MAKS0291, MAKS0296, MAKS1515 |
| Malus halliana Koehne | MAKS1892 |
| Malus toringo (Siebold) Siebold ex Vriese? | MAKS1893, MAKS2672 |
| Malva sylvestris L. | MAKS1151 |
| Marsdenia tomentosa Morr. et Decne. | MAKS1279 |
| Matricaria tetragonosperma (Fr. Schm.) Hara et Kitam. ? | MAKS1316 |
| Medicago hispida Gaertn. | MAKS1168 |
| Medicago lupulina L. | MAKS1167 |
| Melastoma candidum D. Don | MAKS0849, MAKS2084 |
| Melia azedarach L. var. subtripinnnata Miq. | MAKS1220 |
| Melilotus suaveolens Ledeb. | MAKS1166 |
| Meliosma rigida Siebold et Zucc. | MAKS1182 |
| Meliosma tenuis Maxim. | MAKS1171 |
| Melothria japonica (Thunb.) Maxim. ex Cogn. | MAKS0371 |
| Menispermum dauricum DC. | MAKS0126 |
| Mentha arvensis L. var. piperascens Malinvaud | MAKS2222, MAKS2223 |
| Mentha japonica (Miq.) Makino | MAKS2224, MAKS2225, MAKS0275 |
| Mentha spicata L. ? | MAKS2221 |
| Mercurialis leiocarpa Siebold et Zucc. | MAKS0611, MAKS1537, MAKS1538, MAKS1539 |
| Metanarthecium luteo-viride Maxim. | MAKS0634 |
| Metaplexis japonica (Thunb.) Makino | MAKS1097, MAKS1257 |
| Michelia compressa (Maxim.) Sargent | MAKS1725 |
| Michelia sp. | MAKS0058 |
| Millettia japonica (Siebold et Zucc.) A. Gray | MAKS1162 |
| Mimulus inflatus (Miq.) Nakai | MAKS0195 |
| Mirabilis jalapa L. | MAKS1436 |
| Miscanthus sinensis Anderss. | MAKS2447, MAKS2443, MAKS2448, MAKS2449, MAKS2450 |
| Miscanthus sp. | MAKS2444 |
| Miscanthus tinctorius (Steud.) Hack. | MAKS2442 |
| Mitchella undulata Siebold et Zucc. | MAKS1998 |
| Mitella pauciflora Rosend. | MAKS1978 |
| Miyamayomena savatieri (Makino) Kitam. | MAKS0978 |
| Miyamayomena savatieri (Makino) Kitam. cv. | MAKS1342 |
| Moehringia lateriflora (L.) Fenzl | MAKS0182, MAKS0198 |
| Momordica charantia L. var. pavel Crantz. | MAKS0376 |
| Monochasma sheareri (Moore) Maxim. | MAKS1062 |
| Monochoria korsakowii Regel et Maack | MAKS2361 |
| Monochoria vaginalis (Burm. fil.) Presl var. plantaginea (Roxb.) Solms-Laub. | MAKS2289 |
| Monotropa hypopitys L. | MAKS1064 |
| Monotropa uniflora L. ? | MAKS1065 |
| Morus ? | MAKS1670 |
| Morus alba L. | MAKS0703 |
| Morus australis Poir. | MAKS1669 |
| Morus sp. | MAKS1671, MAKS1672 |
| Mosla punctulata (J. F. Gmel.) Nakai | MAKS1397, MAKS1403 |
| Murdannia keisak (Hassk.) Hand.-Mazz. | MAKS0522, MAKS0643, MAKS0812 |
| Myrica rubra Siebold et Zucc. | MAKS1690, MAKS1691, MAKS0727 |
| Myriophyllum spicatum L. | MAKS0424, MAKS0425, MAKS0426, MAKS2070 |
| Myriophyllum ussuriense (Regel) Maxim. | MAKS2675 |
| Myrsine seguinii Lév. | MAKS0476, MAKS1130, MAKS1131 |
| Myrsine stolonifera (Koidz.) Wakler | MAKS1003 |
