The all-time table uses three points for a win and one point for a draw, and does not consider point deductions

Rank	Team	Seasons	G	W	D	L	GF	GA	Pts	Pts/Game	+-	+-/game	Champions	Relegated
1	Nagano Parceiro	3	99	57	22	20	169	86	193	1.9495	83	0.8384	1	0
2	Kamatamare Sanuki	3	99	47	20	32	137	105	161	1.6263	32	0.3232	0	0
3	Honda FC	3	99	45	23	31	149	113	158	1.5960	36	0.3636	0	0
4	Sagawa Printing	3	99	37	25	37	122	129	136	1.3737	-7	-0.0707	0	0
5	FC Ryukyu	3	99	38	21	40	152	164	135	1.3636	-12	-0.1212	0	0
6	Zweigen Kanazawa	3	99	35	28	36	142	129	133	1.3434	13	0.1313	0	0
7	Sagawa Shiga	2	65	39	10	16	121	71	127	1.9538	50	0.7692	1	0
8	Yokogawa Musashino	3	99	33	27	39	104	123	126	1.2727	-19	-0.1919	0	0
9	Blaublitz Akita	3	99	33	25	41	119	138	124	1.2525	-19	-0.1919	0	0
10	V-Varen Nagasaki	2	65	35	18	12	118	68	123	1.8923	50	0.7692	1	0
11	Machida Zelvia	2	67	36	14	17	112	72	122	1.8209	40	0.5970	0	0
12	MIO Biwako Shiga	3	99	30	21	48	136	173	111	1.1212	-37	-0.3737	0	0
13	Sony Sendai	3	83	24	33	26	74	87	105	1.2651	-13	-0.1566	0	0
14	Honda Lock	3	99	25	29	45	101	148	104	1.0505	-47	-0.4747	0	0
15	Tochigi Uva	3	99	25	22	52	110	179	97	0.9798	-69	-0.6970	0	0
16	YSCC Yokohama	2	66	26	10	30	103	106	88	1.3333	-3	-0.0455	0	0
17	Verspah Oita	2	66	18	13	35	72	102	67	1.0152	-30	-0.4545	0	0
18	SC Sagamihara	1	34	18	7	9	58	42	61	1.7941	16	0.4706	0	0
19	Matsumoto Yamaga	1	33	17	8	8	60	38	59	1.7879	22	0.6667	0	0
20	Shizuoka Fujieda MYFC	1	32	11	7	14	39	48	40	1.2500	-9	-0.2813	0	0
21	Fujieda MYFC	1	34	9	9	16	40	58	36	1.0588	-18	-0.5294	0	0
22	Fukushima United	1	34	8	10	16	35	42	34	1.0000	-7	-0.2059	0	0
23	Arte Takasaki	1	33	9	7	17	39	55	34	1.0303	-16	-0.4848	0	0
24	JEF Reserves	1	33	4	7	22	27	63	19	0.5758	-36	-1.0909	0	1