| Name | Deductibility Code |
| 4-H Clubs & Affiliated 4-H Organizations | -- |
| Anza Foundation | 4 |
| Arrow Education Foundation Inc. | -- |
| Benedictine Sisters Foundation of Watertown | -- |
| Big Sioux Nursery Inc. | -- |
| Boys and Girls Club of Watertown Inc. | -- |
| Charles Langenfeld Scholarship Trust | -- |
| Codington County Cares Cancer Foundation | -- |
| Codington County Historical Society Inc. | -- |
| Codington County Pro Phesants Inc. | -- |
| Cornerstone Foundation | -- |
| Emmanuel Holiness Church | -- |
| First District Development Company | -- |
| Friends of the Watertown Regional Library | -- |
| Garden City Repeater Inc. | -- |
| Glacial Lakes Humane Society and Shelter | -- |
| Good Samaritan-Sanford Community Health Services | -- |
| Good Stewards Inc. | -- |
| Home Ownership Assistance Program Inc. | -- |
| Human Service Agency | -- |
| Human Service Agency Foundation | -- |
| Jenkins Living Center Foundation | -- |
| Jenkins Living Center Inc. | -- |
| Kampeska Cemetery Association Inc. | 6 |
| Karing Kapers Inc. | -- |
| Lake Area Child Protection Inc. | -- |
| Lake Area Technical Institute Alumni Association | -- |
| Lake Area Technical Institute Foundation | -- |
| Lake Area Zoological Society | -- |
| Lake Kampeska Water Project District | -- |
| Living Faith Christian Center Inc. | -- |
| Loud & Proud Cheer Booster Club | -- |
| M D M Inc. | -- |
| Mark Stahl Ministries International | -- |
| Mellette Memorial Association | -- |
| Messer Family Foundation | 4 |
| Midwest Evangelistic Association | -- |
| Neighborhood Church | -- |
| Northeast Unmet Needs Inc. | -- |
| Northern Prairie Performing Arts | -- |
| Prairie Lakes Health Care Foundation | -- |
| Prairie Lakes Health Care System Inc. | -- |
| Prairie Lakes Home Connections Inc. | -- |
| Prairie Lakes Hospital Auxiliary | -- |
| Redlin Art Center | -- |
| Search & Rescue Support Inc. | -- |
| South Dakota Association for Career and Technical Education Inc. | -- |
| South Dakota Foundation of Family Medicine | -- |
| Steve Ferguson Ministries Inc. | -- |
| Strides Inc. | 4 |
| Town Players | -- |
| Veterans Memorial Corporation | -- |
| Watertown Area Arts Council | -- |
| Watertown Area Career Learning Ctr | -- |
| Watertown Area Council for the Aging | -- |
| Watertown Area Diabetes Coalition | -- |
| Watertown Area Homes of Hope | -- |
| Watertown Area Swim Club | -- |
| Watertown Area Transit Inc. | -- |
| Watertown Area United Way | -- |
| Watertown Banquet | -- |
| Watertown Baseball Parents Association Inc. | -- |
| Watertown Christian School | -- |
| Watertown Community Foundation | -- |
| Watertown Elks 838 Charity Foundation | -- |
| Watertown Figure Skate Club Inc. | -- |
| Watertown Hockey Association Inc. | -- |
| Watertown Humane Society Thrift Store Inc. | -- |
| Watertown Inline Skating Association | 4 |
| Watertown Senior Citizens Club | -- |
| Watertown South Dakota Congregation of Jehovahs Witnesses | -- |
| Watertown Tennis Association | -- |
| Watertown Volunteer Center | -- |
| Watertown Youth Soccer Association | -- |
| Womens Resource Center | -- |