Pandas dataframe fillna() only some columns in place

You can select your desired columns and do it by assignment:

df[['a', 'b']] = df[['a','b']].fillna(value=0)

The resulting output is as expected:

     a    b    c
0  1.0  4.0  NaN
1  2.0  5.0  NaN
2  3.0  0.0  7.0
3  0.0  6.0  8.0

You can using dict , fillna with different value for different column

df.fillna({'a':0,'b':0})
Out[829]: 
     a    b    c
0  1.0  4.0  NaN
1  2.0  5.0  NaN
2  3.0  0.0  7.0
3  0.0  6.0  8.0

After assign it back

df=df.fillna({'a':0,'b':0})
df
Out[831]: 
     a    b    c
0  1.0  4.0  NaN
1  2.0  5.0  NaN
2  3.0  0.0  7.0
3  0.0  6.0  8.0

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