The below query will retreive all foreign key columns which does not have an Index.
SELECT s.Name + '.' + t.Name AS TableName,
c.Name AS ColumnName,
OBJECT_NAME(constraint_object_id) AS FKName
FROM sys.foreign_key_columns fkc
LEFT JOIN sys.index_columns ic
ON fkc.parent_object_id = ic.object_id
AND fkc.parent_column_id = ic.column_id
LEFT JOIN sys.columns c
ON fkc.parent_column_id = c.column_id
AND fkc.parent_object_id = c.object_id
LEFT JOIN sys.tables t
ON fkc.parent_object_id = t.object_id
LEFT JOIN sys.schemas s
ON t.schema_id = s.schema_id
WHERE ic.object_id IS NULL
ORDER BY TableName, ColumnName
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